diff --git a/research/finding_identity/.gitignore b/research/finding_identity/.gitignore
index 351a656..e7cf615 100644
--- a/research/finding_identity/.gitignore
+++ b/research/finding_identity/.gitignore
@@ -1,2 +1,3 @@
 .repos/
 results/
+tables/
diff --git a/research/finding_identity/README.md b/research/finding_identity/README.md
index 6e38f08..df51d4f 100644
--- a/research/finding_identity/README.md
+++ b/research/finding_identity/README.md
@@ -118,7 +118,8 @@ python -m research.finding_identity drift-summary research/finding_identity/resu
 ```
 
 Clones go to `.repos/` and results to `results/<label>/` (drift: `results/drift/<label>/`);
-both are git-ignored. Each result
+both are git-ignored, as is `tables/` (see [Statistics](#statistics)); the aggregated
+tables of the corpus run are committed under `paper/`. Each result
 directory holds `summary.json`, `pairs.jsonl` (one line per commit pair) and, with
 `--details`, `findings.jsonl` (one line per compared finding with its true status and each
 scheme's outcome, for sampling and manual checks).
@@ -129,6 +130,182 @@ Tests:
 python -m pytest research/finding_identity/tests
 ```
 
+`pip install -r research/finding_identity/requirements.txt` adds the optional plotting
+dependency.
+
+## Corpus
+
+`corpus.csv` lists the repositories of the study, each pinned to one commit. Columns:
+`label`, `url`, `branch`, `sha` (the pinned commit), `pinned` (date of pinning),
+`language` (backend language: `python`, or `javascript` for JavaScript/TypeScript),
+`framework`, `license` (SPDX), `rationale` (why it qualifies and where its
+security-relevant code is), and four columns measured at the pinned commit by
+`corpus check`: `commit_date`, `commits_2y`, `py_files`, `js_files`.
+
+### Selection criteria
+
+A repository is in the corpus when all of these hold:
+
+1. **Kind.** A deployable web *application* (or an application server distributed as a
+   package), not a library, framework, SDK, tutorial, template, sample or intentionally
+   vulnerable training project; and not a fork. Judged by hand from the project's own
+   description; the `rationale` column records it.
+2. **Language.** A Python back end (Flask, Django, FastAPI, or another Python web
+   framework: Pyramid, web.py, Frappe) or a JavaScript/TypeScript back end (Express,
+   Koa, Fastify, NestJS, Next.js API routes). The back-end language must have at least
+   100 source files that the harness analyses (vendored, generated and minified files
+   excluded) and more of them than the other language, so that every repository counts
+   cleanly as a Python or a JavaScript/TypeScript project.
+3. **Security-relevant code.** Handles HTTP requests from users and does at least one of:
+   builds SQL or other database queries, renders templates, runs subprocesses, accepts
+   file uploads, fetches user-supplied URLs, or implements authentication. Recorded in
+   `rationale`.
+4. **History.** At least 200 first-parent commits on the pinned branch in the 730 days
+   before the pinned commit (the replay needs 200 commit pairs; this also shows
+   sustained activity).
+5. **Activity.** The pinned commit is at most 90 days older than the pinning date.
+6. **Licence.** The root licence file (`LICENSE`, `LICENCE` or `COPYING`) is one
+   OSI-approved licence (MIT, BSD-2/3-Clause, Apache-2.0, MPL-2.0, GPL-2.0/3.0,
+   AGPL-3.0, LGPL, PostgreSQL) for the whole repository. Source-available licences
+   (Business Source, Sustainable Use, Functional Source, Elastic, Commons Clause) and
+   root licences that put some directories under other terms (typically an `ee/`
+   enterprise edition) are excluded, because the replay scans every directory.
+7. **No committed build output.** The repository does not track bundler output (minified,
+   content-hashed JavaScript) outside the paths the harness already skips (`dist/`,
+   `build/`, `node_modules/`, `*.min.js`, ...). Such files are rewritten wholesale by every
+   build and would swamp the real code's findings.
+8. **Branch.** The default branch, unless the project develops on another branch
+   (DefectDojo's `dev`, IntelOwl's `develop`: their default branches only receive
+   releases); the branch is recorded.
+
+Criteria 1, 3 and 7 are judged by hand. The file counts of criterion 2 and criteria 4, 5
+and 6 are measured from git alone at the pinned commit, so anyone can re-check them later
+with the same result:
+
+```bash
+python -m research.finding_identity corpus check research/finding_identity/corpus.csv
+```
+
+`corpus pin` re-pins every row (or `--only a,b`) to the current head of its branch; that
+is how the corpus was built, from a candidate list of 60 repositories on 2026-10-14. The
+35 that met every criterion (25 Python, 10 JavaScript/TypeScript) form the corpus; the 25
+that failed a criterion were dropped (reasons as `corpus check` reported them; "mixed"
+means the root licence puts some directories under other terms). Criterion 7 was added
+during the first batch run, when CTFd turned out to commit its Vite build output: its
+replay compared 12,944 findings in its first 75 commit pairs, against at most about 4,000
+over 200 pairs for any other repository. No other repository was affected. Its finished
+replay (200 pairs, 28 minutes) has 22,122 persisting findings, as many as the other 35
+repositories together (23,237); including it would raise the pooled `codeguard`
+false-new rate from 1.8% to 48.7% while the per-repository median stays at 0.5%.
+
+| Candidate | Reason |
+|---|---|
+| ctfd (CTFd/CTFd) | commits Vite build output (`CTFd/themes/*/static/assets/*-<hash>.js`) that the harness does not skip (criterion 7) |
+| paperless-ngx (paperless-ngx/paperless-ngx) | Python is not the majority language (410 py, 435 js) |
+| mathesar (mathesar-foundation/mathesar) | pinned commit is 93 days old; Python is not the majority language (235 py, 492 js) |
+| redash (getredash/redash) | only 194 first-parent commits in 730 days; Python is not the majority language (291 py, 577 js) |
+| superset (apache/superset) | Python is not the majority language (2988 py, 4187 js) |
+| dispatch (Netflix/dispatch) | pinned commit is 407 days old |
+| polar (polarsource/polar) | Python is not the majority language (2167 py, 2473 js) |
+| archery (hhyo/Archery) | only 102 first-parent commits in 730 days |
+| tandoor (TandoorRecipes/recipes) | licence file reads as non-osi (commons clause), declared AGPL-3.0 |
+| label-studio (HumanSignal/label-studio) | Python is not the majority language (746 py, 1951 js) |
+| plane (makeplane/plane) | Python is not the majority language (671 py, 3031 js) |
+| privacyidea (privacyidea/privacyidea) | Python is not the majority language (685 py, 989 js) |
+| authentik (goauthentik/authentik) | licence file reads as mixed (MIT), declared MIT |
+| posthog (PostHog/posthog) | licence file reads as mixed (MIT), declared MIT |
+| seahub (haiwen/seahub) | Python is not the majority language (1069 py, 1592 js) |
+| twenty (twentyhq/twenty) | licence file reads as mixed (AGPL-3.0), declared AGPL-3.0 |
+| strapi (strapi/strapi) | licence file reads as mixed (MIT), declared MIT |
+| medusa (medusajs/medusa) | licence file reads as mixed (MIT), declared MIT |
+| parse-server (parse-community/parse-server) | only 83 first-parent commits in 730 days |
+| umami (umami-software/umami) | only 87 first-parent commits in 730 days |
+| budibase (Budibase/budibase) | licence file reads as non-osi (business source license), declared GPL-3.0 |
+| rocketchat (RocketChat/Rocket.Chat) | licence file reads as mixed (MIT), declared MIT |
+| infisical (Infisical/infisical) | licence file reads as mixed (MIT), declared MIT |
+| dub (dubinc/dub) | licence file reads as mixed (AGPL-3.0), declared AGPL-3.0 |
+| novu (novuhq/novu) | licence file reads as missing, declared MIT |
+
+## Batch runs
+
+```bash
+# Replay every corpus repository at its pinned SHA, 4 repositories at a time
+python -m research.finding_identity batch research/finding_identity/corpus.csv \
+    --commits 200 --jobs 4
+```
+
+Each repository is fetched shallowly at its pinned SHA (no checkout) into `.repos/<label>`
+and replayed in its own `replay` process, so a crash or a `--timeout` only affects that
+repository. The batch is **resumable**: a repository whose `results/<label>/summary.json`
+was produced from the pinned SHA with at least `--commits` commit pairs is skipped, so
+rerunning the same command only retries failures and repositories that were not reached
+(`--force` reruns everything; a changed SHA or a larger `--commits` reruns that
+repository). Failures do not stop the batch: each attempt is appended to
+`results/batch.jsonl` (label, status, error, seconds) and each replay's output goes to
+`results/_logs/<label>.log`; the command exits with status 1 if any repository failed.
+`--only a,b` restricts the run, `--delete-clones` removes each clone after its replay.
+
+Every replay also records its totals **per rule category** (`by_category` in
+`summary.json`, with the same `totals` and `collisions` blocks as the summary itself).
+Scheme keys include the rule ID and the ground truth pairs findings of the same rule
+only, so each category is scored on its own findings and the categories add up exactly to
+the totals.
+
+## Statistics
+
+```bash
+python -m research.finding_identity stats research/finding_identity/results \
+    --corpus research/finding_identity/corpus.csv --out research/finding_identity/tables --plot
+```
+
+For each scope (`all` findings and `security` findings by default; `--scopes` takes any
+rule categories), each scheme and each metric (`false_new`, `false_new_moved`,
+`false_new_edited`, `hidden`, `mispair`, `collision`, defined as above), `stats` reports:
+
+- **pooled (micro) rate**: total numerator over total denominator across repositories,
+  with a **Wilson 95% interval**. Wilson assumes independent findings, so it is too narrow
+  for a corpus where findings in one repository are correlated;
+- **cluster bootstrap 95% interval** of the pooled rate: repositories are resampled with
+  replacement (10,000 resamples, fixed seed, the same resamples for every table), the
+  pooled rate is recomputed, and the 2.5th and 97.5th percentiles are taken. This is the
+  interval to quote;
+- **macro rate**: the mean of per-repository rates, with its own cluster bootstrap
+  interval. Pooled rates are dominated by the repositories with the most findings; macro
+  rates weigh every repository equally;
+- **median and interquartile range** of the per-repository rates (quantiles with linear
+  interpolation, numpy's default).
+
+A repository with a zero denominator for a metric (for example no persisting security
+findings) has no rate: it adds nothing to the pooled sums and is left out of the macro
+rate, median and quartiles; `repos_with_rate` counts the rest.
+
+Outputs in `--out`:
+
+| File | Contents |
+|---|---|
+| `pooled.csv` | one row per scope, scheme and metric: counts, pooled rate, Wilson and bootstrap intervals, macro rate and interval, median, quartiles |
+| `per_repo.csv` | one row per scope, repository, scheme and metric: numerator, denominator, rate |
+| `repos.csv` | one row per repository: pinned head, commit pairs, versions scanned, runtime, findings per scope |
+| `tables.md` | the pooled tables in Markdown |
+| `per_repo.md` | per-repository false-new rates of every scheme, per scope, in Markdown |
+| `false_new_by_repo.png` | with `--plot`: box plot of per-repository false-new rates per scheme, one panel per scope (needs `matplotlib`, see `requirements.txt`) |
+
+### Committed results
+
+`paper/` holds the aggregated outputs of the corpus run of 2026-10-14 (CodeGuard 2.2.0,
+200 commit pairs per repository, all rule categories), produced with:
+
+```bash
+python -m research.finding_identity batch research/finding_identity/corpus.csv --commits 200 --jobs 4
+python -m research.finding_identity stats research/finding_identity/results \
+    --corpus research/finding_identity/corpus.csv --out research/finding_identity/paper --plot
+```
+
+The batch took 14 min 44 s of wall-clock time for the 35 repositories on 4 cores
+(2,781 s summed over repositories, fetching included): 7,000 commit pairs, 34,275 file
+versions scanned, 36,232 findings, 8,703 of them security findings. Clones and per-commit
+results are not committed.
+
 ## Known limitations
 
 - The ground truth is a line diff. A finding whose anchor line is rewritten beyond the
@@ -137,6 +314,10 @@ python -m pytest research/finding_identity/tests
   form feeds and other rare separators, so in files containing them the `codeguard` key can
   hash a neighbouring line. The harness measures the tool as it is.
 - Taint findings depend on several lines; the ground truth tracks only the reported line.
+- Every scheme's key includes the file path, so a renamed or moved file makes every
+  scheme report its findings as new, even on unchanged lines. In the corpus run this is
+  most of the residual false-new rate of the text-based schemes (for example Ghost, which
+  renamed many `.js` files to `.ts`).
 
 Drift mode adds its own limits:
 
diff --git a/research/finding_identity/batch.py b/research/finding_identity/batch.py
new file mode 100644
index 0000000..60c4cfc
--- /dev/null
+++ b/research/finding_identity/batch.py
@@ -0,0 +1,177 @@
+"""Replay every repository of the corpus at its pinned commit, several at a time.
+
+Each repository is fetched shallowly at its pinned SHA (no checkout) and replayed in its
+own ``python -m research.finding_identity replay`` process, so one crash or timeout
+affects only that repository. The batch is resumable: a repository whose
+``summary.json`` already covers the pinned SHA and the requested number of commit pairs
+is skipped. Every attempt is appended to ``<out>/batch.jsonl`` and each replay's output
+goes to ``<out>/_logs/<label>.log``.
+"""
+
+from __future__ import annotations
+
+import json
+import shutil
+import subprocess
+import sys
+import time
+import traceback
+from collections.abc import Callable, Sequence
+from concurrent.futures import ThreadPoolExecutor, as_completed
+from dataclasses import dataclass
+from datetime import datetime, timezone
+from pathlib import Path
+from typing import Any
+
+from .corpus import CorpusEntry, fetch_pinned, first_parent_count, has_commit
+
+#: The directory ``python -m research.finding_identity`` must run from.
+PROJECT_ROOT = Path(__file__).resolve().parents[2]
+
+
+@dataclass(frozen=True)
+class BatchOptions:
+    commits: int
+    out: Path
+    workdir: Path
+    categories: str = "security,performance,quality"
+    details: bool = False
+    timeout: float | None = None
+    delete_clones: bool = False
+
+
+def summary_path(opts: BatchOptions, label: str) -> Path:
+    return opts.out / label / "summary.json"
+
+
+def is_done(entry: CorpusEntry, opts: BatchOptions) -> bool:
+    """True if a finished replay of *entry* at its pinned SHA covers ``opts.commits``."""
+    path = summary_path(opts, entry.label)
+    if not path.exists():
+        return False
+    try:
+        summary = json.loads(path.read_text(encoding="utf-8"))
+    except (OSError, ValueError):
+        return False
+    return bool(summary.get("head") == entry.sha and summary.get("commit_pairs", 0) >= opts.commits)
+
+
+def prepare(entry: CorpusEntry, opts: BatchOptions) -> Path:
+    """A local repository holding the pinned commit and enough first-parent history."""
+    target = opts.workdir / entry.label
+    if not has_commit(target, entry.sha) or first_parent_count(target, entry.sha) <= opts.commits:
+        fetch_pinned(entry.url, entry.sha, target, depth=opts.commits + 2)
+    return target
+
+
+def run_one(entry: CorpusEntry, opts: BatchOptions) -> None:
+    """Fetch and replay one repository; raise if the replay does not finish."""
+    log_path = opts.out / "_logs" / f"{entry.label}.log"
+    log_path.parent.mkdir(parents=True, exist_ok=True)
+    target = prepare(entry, opts)
+    cmd = [
+        sys.executable,
+        "-m",
+        "research.finding_identity",
+        "replay",
+        str(target.resolve()),
+        "--ref",
+        entry.sha,
+        "--commits",
+        str(opts.commits),
+        "--label",
+        entry.label,
+        "--out",
+        str((opts.out / entry.label).resolve()),
+        "--categories",
+        opts.categories,
+    ]
+    if opts.details:
+        cmd.append("--details")
+    with log_path.open("w", encoding="utf-8") as log:
+        log.write(" ".join(cmd) + "\n")
+        log.flush()
+        proc = subprocess.run(
+            cmd,
+            cwd=PROJECT_ROOT,
+            stdout=log,
+            stderr=subprocess.STDOUT,
+            timeout=opts.timeout,
+            check=False,
+        )
+    if proc.returncode != 0:
+        raise RuntimeError(f"replay exited with status {proc.returncode}, see {log_path}")
+    if not is_done(entry, opts):
+        raise RuntimeError(f"replay finished without a complete summary.json, see {log_path}")
+    if opts.delete_clones:
+        shutil.rmtree(target, ignore_errors=True)
+
+
+Runner = Callable[[CorpusEntry, BatchOptions], None]
+
+
+def _attempt(entry: CorpusEntry, opts: BatchOptions, runner: Runner) -> dict[str, Any]:
+    started = time.monotonic()
+    status: dict[str, Any] = {"label": entry.label, "sha": entry.sha, "status": "ok"}
+    try:
+        runner(entry, opts)
+    except subprocess.TimeoutExpired:
+        status.update(status="failed", error=f"timed out after {opts.timeout}s")
+    except Exception as exc:  # one repository must not stop the batch
+        status.update(status="failed", error=f"{type(exc).__name__}: {exc}")
+        log_path = opts.out / "_logs" / f"{entry.label}.log"
+        log_path.parent.mkdir(parents=True, exist_ok=True)
+        with log_path.open("a", encoding="utf-8") as log:
+            log.write(traceback.format_exc())
+    status["seconds"] = round(time.monotonic() - started, 1)
+    status["finished"] = datetime.now(timezone.utc).isoformat(timespec="seconds")
+    return status
+
+
+def run_batch(
+    entries: Sequence[CorpusEntry],
+    opts: BatchOptions,
+    *,
+    jobs: int = 1,
+    force: bool = False,
+    runner: Runner = run_one,
+) -> list[dict[str, Any]]:
+    """Replay every entry not already done; return one status record per entry."""
+    opts.out.mkdir(parents=True, exist_ok=True)
+    statuses: list[dict[str, Any]] = []
+    pending: list[CorpusEntry] = []
+    for entry in entries:
+        if not force and is_done(entry, opts):
+            statuses.append({"label": entry.label, "sha": entry.sha, "status": "skipped"})
+        else:
+            pending.append(entry)
+    print(
+        f"{len(entries)} repositories: {len(statuses)} already done, {len(pending)} to run "
+        f"with {jobs} job(s)",
+        file=sys.stderr,
+    )
+    started = time.monotonic()
+    with (
+        ThreadPoolExecutor(max_workers=max(jobs, 1)) as pool,
+        (opts.out / "batch.jsonl").open("a", encoding="utf-8") as journal,
+    ):
+        futures = {pool.submit(_attempt, e, opts, runner): e for e in pending}
+        for done, future in enumerate(as_completed(futures), start=1):
+            status = future.result()
+            statuses.append(status)
+            journal.write(json.dumps(status) + "\n")
+            journal.flush()
+            note = f" ({status['error']})" if status["status"] == "failed" else ""
+            print(
+                f"[{done}/{len(pending)}] {status['label']}: {status['status']} "
+                f"in {status['seconds']:.0f}s{note}",
+                file=sys.stderr,
+            )
+    failed = [s["label"] for s in statuses if s["status"] == "failed"]
+    print(
+        f"batch finished in {time.monotonic() - started:.0f}s; "
+        f"{len(failed)} failed{': ' + ', '.join(failed) if failed else ''}",
+        file=sys.stderr,
+    )
+    order = {e.label: i for i, e in enumerate(entries)}
+    return sorted(statuses, key=lambda s: order[s["label"]])
diff --git a/research/finding_identity/categories.py b/research/finding_identity/categories.py
new file mode 100644
index 0000000..17f7dea
--- /dev/null
+++ b/research/finding_identity/categories.py
@@ -0,0 +1,36 @@
+"""Rule categories (security, performance, quality) for per-category totals.
+
+Every scheme key includes the rule ID, and the ground truth pairs findings of the same
+rule only, so a file's findings split exactly by category: scoring each category's
+findings on their own gives counts that add up to the all-category counts.
+"""
+
+from __future__ import annotations
+
+from collections import defaultdict
+from collections.abc import Sequence
+from functools import cache
+
+import codeguard.rules  # noqa: F401  (registers the built-in rules)
+from codeguard.engine.registry import REGISTRY
+
+from .matching import Observation
+
+UNKNOWN = "unknown"
+
+
+@cache
+def _categories() -> dict[str, str]:
+    return {r.id: r.category.value for r in REGISTRY.all()}
+
+
+def category_of(rule_id: str) -> str:
+    """The category of *rule_id*, or ``"unknown"`` for a rule not in the registry."""
+    return _categories().get(rule_id, UNKNOWN)
+
+
+def split_by_category(observations: Sequence[Observation]) -> dict[str, list[Observation]]:
+    out: dict[str, list[Observation]] = defaultdict(list)
+    for o in observations:
+        out[category_of(o.rule)].append(o)
+    return dict(out)
diff --git a/research/finding_identity/cli.py b/research/finding_identity/cli.py
index abd130e..f828dae 100644
--- a/research/finding_identity/cli.py
+++ b/research/finding_identity/cli.py
@@ -1,10 +1,14 @@
-"""Command line: ``python -m research.finding_identity {replay,summarize,drift,drift-summary}``."""
+"""Command line: ``python -m research.finding_identity <command>``.
+
+Commands: replay, summarize, drift, drift-summary, batch, corpus, stats.
+"""
 
 from __future__ import annotations
 
 import argparse
 from pathlib import Path
 
+from . import commands
 from .drift import add_arguments as add_drift_arguments
 from .drift import run as run_drift
 from .gitrepo import GitRepo
@@ -43,7 +47,12 @@ def main(argv: list[str] | None = None) -> None:
     dp.add_argument("results", nargs="+", type=Path)
     dp.add_argument("--csv", type=Path, help="also write one row per span and scheme to this CSV")
 
+    corpus_commands = commands.register(sub)
+
     args = parser.parse_args(argv)
+    if args.command in corpus_commands:
+        corpus_commands[args.command](args)
+        return
     if args.command == "drift":
         run_drift(args)
         return
diff --git a/research/finding_identity/commands.py b/research/finding_identity/commands.py
new file mode 100644
index 0000000..73c437e
--- /dev/null
+++ b/research/finding_identity/commands.py
@@ -0,0 +1,134 @@
+"""Corpus-level subcommands: ``batch``, ``corpus pin``, ``corpus check`` and ``stats``."""
+
+from __future__ import annotations
+
+import argparse
+import sys
+from collections.abc import Callable
+from datetime import date, datetime, timezone
+from pathlib import Path
+from typing import Any
+
+from .batch import BatchOptions, run_batch
+from .corpus import CorpusEntry, load_corpus, measure, pin, save_corpus
+from .stats import ALL, run_stats
+
+HERE = Path(__file__).parent
+
+Handler = Callable[[argparse.Namespace], None]
+
+
+def register(sub: Any) -> dict[str, Handler]:
+    """Add the subcommands to *sub* (an argparse subparsers object); return their handlers."""
+    bp = sub.add_parser("batch", help="replay every repository of a corpus file")
+    bp.add_argument("corpus", type=Path, help="corpus CSV (see corpus.csv)")
+    bp.add_argument("--commits", type=int, default=200, help="commit pairs per repository")
+    bp.add_argument("--jobs", type=int, default=4, help="repositories replayed in parallel")
+    bp.add_argument("--out", type=Path, default=HERE / "results", help="results directory")
+    bp.add_argument("--workdir", type=Path, default=HERE / ".repos", help="where to clone")
+    bp.add_argument("--only", help="comma-separated labels to run (default: all)")
+    bp.add_argument(
+        "--categories",
+        default="security,performance,quality",
+        help="comma-separated rule categories to run",
+    )
+    bp.add_argument("--details", action="store_true", help="write one record per finding")
+    bp.add_argument("--timeout", type=float, help="seconds allowed per repository")
+    bp.add_argument("--force", action="store_true", help="rerun repositories already done")
+    bp.add_argument(
+        "--delete-clones", action="store_true", help="delete each clone after its replay"
+    )
+
+    cp = sub.add_parser("corpus", help="pin corpus commits or check the selection criteria")
+    cp.add_argument("action", choices=["pin", "check"])
+    cp.add_argument("corpus", type=Path)
+    cp.add_argument("--workdir", type=Path, default=HERE / ".repos", help="where to clone")
+    cp.add_argument("--only", help="comma-separated labels (default: all)")
+    cp.add_argument("--write", action="store_true", help="check: write the measured columns back")
+
+    st = sub.add_parser("stats", help="confidence intervals and spread over many replays")
+    st.add_argument("results", nargs="+", type=Path, help="result directories or their parent")
+    st.add_argument("--out", type=Path, default=HERE / "tables", help="where to write tables")
+    st.add_argument("--corpus", type=Path, help="restrict to (and order by) this corpus")
+    st.add_argument(
+        "--scopes",
+        default=f"{ALL},security",
+        help=f"comma-separated scopes: {ALL!r} and/or rule categories",
+    )
+    st.add_argument("--resamples", type=int, default=10_000, help="bootstrap resamples")
+    st.add_argument("--seed", type=int, default=20261014, help="bootstrap random seed")
+    st.add_argument("--plot", action="store_true", help="box plot (needs matplotlib)")
+
+    return {"batch": _batch, "corpus": _corpus, "stats": _stats}
+
+
+def _select(entries: list[CorpusEntry], only: str | None) -> list[CorpusEntry]:
+    if not only:
+        return entries
+    wanted = {x.strip() for x in only.split(",") if x.strip()}
+    unknown = wanted - {e.label for e in entries}
+    if unknown:
+        raise SystemExit(f"unknown labels: {', '.join(sorted(unknown))}")
+    return [e for e in entries if e.label in wanted]
+
+
+def _batch(args: argparse.Namespace) -> None:
+    entries = _select(load_corpus(args.corpus), args.only)
+    unpinned = [e.label for e in entries if not e.sha]
+    if unpinned:
+        raise SystemExit(f"not pinned (run `corpus pin` first): {', '.join(unpinned)}")
+    opts = BatchOptions(
+        commits=args.commits,
+        out=args.out,
+        workdir=args.workdir,
+        categories=args.categories,
+        details=args.details,
+        timeout=args.timeout,
+        delete_clones=args.delete_clones,
+    )
+    statuses = run_batch(entries, opts, jobs=args.jobs, force=args.force)
+    if any(s["status"] == "failed" for s in statuses):
+        sys.exit(1)
+
+
+def _corpus(args: argparse.Namespace) -> None:
+    entries = load_corpus(args.corpus)
+    chosen = _select(entries, args.only)
+    if args.action == "pin":
+        today = datetime.now(timezone.utc).date()
+        for e in chosen:
+            pin(e, today)
+            print(f"{e.label}: {e.branch} @ {e.sha}")
+        save_corpus(args.corpus, entries)
+        return
+    failures = 0
+    for e in chosen:
+        try:
+            problems = measure(e, args.workdir)
+        except Exception as exc:  # report it and check the others
+            problems = [f"{type(exc).__name__}: {exc}"]
+        failures += bool(problems)
+        verdict = "ok" if not problems else "FAIL: " + "; ".join(problems)
+        print(
+            f"{e.label:<22} {e.commits_2y or '?':>5} commits/2y  py={e.py_files or '?':>5} "
+            f"js={e.js_files or '?':>5}  {e.commit_date or '?'}  {verdict}"
+        )
+    if args.write:
+        save_corpus(args.corpus, entries)
+    print(f"{len(chosen) - failures}/{len(chosen)} meet the criteria (checked {date.today()})")
+    if failures:
+        sys.exit(1)
+
+
+def _stats(args: argparse.Namespace) -> None:
+    labels = [e.label for e in load_corpus(args.corpus)] if args.corpus else None
+    scopes = [s.strip() for s in args.scopes.split(",") if s.strip()]
+    run_stats(
+        args.results,
+        args.out,
+        labels=labels,
+        scopes=scopes,
+        resamples=args.resamples,
+        seed=args.seed,
+        plot=args.plot,
+    )
diff --git a/research/finding_identity/corpus.csv b/research/finding_identity/corpus.csv
new file mode 100644
index 0000000..378b809
--- /dev/null
+++ b/research/finding_identity/corpus.csv
@@ -0,0 +1,36 @@
+label,url,branch,sha,pinned,language,framework,license,rationale,commit_date,commits_2y,py_files,js_files
+defectdojo,https://github.com/DefectDojo/django-DefectDojo,dev,559a677f183c0083cd78906be1527b3eb1a2dfb7,2026-10-14,python,Django,BSD-3-Clause,"Vulnerability management application: raw SQL in reports and filters, file uploads of scanner output, XML/JSON parsers, Django templates",2026-10-14,2279,2486,17
+saleor,https://github.com/saleor/saleor,main,925b69959a97c9deda7cdc85092494896d0aa1f4,2026-10-14,python,Django,BSD-3-Clause,"E-commerce API server: authentication and permissions, payment-gateway webhooks, GraphQL request handling, raw SQL in search",2026-10-14,1083,4370,0
+netbox,https://github.com/netbox-community/netbox,main,0c2635e0b86096e1937976ce9158e139dff108dd,2026-10-14,python,Django,Apache-2.0,"Network source-of-truth application: REST and GraphQL APIs, Jinja2 export and config templates, user-supplied scripts and webhooks",2026-10-14,1597,1290,53
+zulip,https://github.com/zulip/zulip,main,85f6f243094f7a2bdff42f565763eb2bf68d5f6a,2026-10-14,python,Django,Apache-2.0,"Team chat server: authentication backends, incoming webhooks, Markdown rendering of user content, raw SQL, subprocess management tooling",2026-10-14,10972,2037,685
+healthchecks,https://github.com/healthchecks/healthchecks,master,ea65922ae6b3bdf3cf4cb4e3a5ed5f6e660c31ed,2026-10-14,python,Django,BSD-3-Clause,"Cron monitoring service: outbound HTTP to user-configured webhooks, notification templates, API key authentication",2026-10-14,838,654,35
+inventree,https://github.com/inventree/InvenTree,master,720ba157bb006cb0edcebe9dba05a2b9d0a3d7ba,2026-10-14,python,Django,MIT,"Inventory management application: file uploads and imports, report and label templates, plugin loading, REST API",2026-10-14,2465,626,545
+addons-server,https://github.com/mozilla/addons-server,master,1acac15ee405a6664eb02c2a991b99e6f53cf22f,2026-10-14,python,Django,BSD-3-Clause,"Firefox add-ons site back end: add-on uploads and validation subprocesses, signing, user content, REST API",2026-10-14,5481,1418,110
+kitsune,https://github.com/mozilla/kitsune,main,522df66df0ff55f8e3406dfe5c8ee6b7fe8cc8e5,2026-10-14,python,Django,BSD-3-Clause,"Mozilla support site: user-generated wiki and forum content, templates, search queries, authentication",2026-10-14,1372,1045,148
+readthedocs,https://github.com/readthedocs/readthedocs.org,main,90e0eb5a328bd5c973067b2b4b412c787afebe73,2026-10-14,python,Django,MIT,"Documentation hosting application: builds user projects via subprocesses and containers, VCS webhooks, file serving",2026-10-13,1048,970,6
+weblate,https://github.com/WeblateOrg/weblate,main,5b328473a12d06dac172f9bd90f3ebeb3edef1f6,2026-10-14,python,Django,GPL-3.0,"Translation management application: VCS operations through subprocesses, file uploads and format parsers, webhooks",2026-10-14,23007,1140,38
+mealie,https://github.com/mealie-recipes/mealie,mealie-next,1eced44c96664e8263e817317c87e7fc2ce85790,2026-10-14,python,FastAPI,AGPL-3.0,"Recipe manager: fetches and scrapes user-supplied URLs, image and backup uploads, authentication",2026-10-14,2530,667,306
+lnbits,https://github.com/lnbits/lnbits,dev,dc24c15f4735871c382ca96827a62224852d39e4,2026-10-14,python,FastAPI,MIT,"Lightning wallet server: raw SQL, API key authentication, extension loading, payment handling",2026-10-14,916,333,133
+jumpserver,https://github.com/jumpserver/jumpserver,dev,ac331bb74f054883ffea1559c8a044eb66fcd794,2026-10-14,python,Django,GPL-3.0,"Bastion host (privileged access management): authentication and MFA, command and session handling, asset credentials",2026-10-14,1446,1496,29
+warehouse,https://github.com/pypi/warehouse,main,8a4943e82c7f5f3e26ab1c9688f5cb141030050e,2026-10-14,python,Pyramid,Apache-2.0,"PyPI, the Python package index: package uploads, authentication and 2FA, raw SQL, templates",2026-10-14,1333,928,72
+openlibrary,https://github.com/internetarchive/openlibrary,master,083e584de8fa360dba048f643076e04c210429a8,2026-10-14,python,web.py,AGPL-3.0,"Open Library web application: templates, SQL, user content, subprocess-based tooling",2026-10-14,1607,584,285
+ckan,https://github.com/ckan/ckan,master,94a2156b7ae8156b8ef478648a90095313134781,2026-10-14,python,Flask,AGPL-3.0,"Open-data portal: file uploads, datastore SQL, Jinja templates, plugin system, API keys",2026-10-13,335,725,88
+indico,https://github.com/indico/indico,master,b373431fd7a06849bb112cdbca60abbcfc5a0b21,2026-10-14,python,Flask,MIT,"Event management application: file uploads, Jinja templates, SQLAlchemy and raw SQL, authentication",2026-10-14,966,1288,775
+securedrop,https://github.com/freedomofpress/securedrop,develop,fb5c1f153ebef7c5057cd3c7b69fadd49bcc83f4,2026-10-14,python,Flask,AGPL-3.0,"Whistleblower submission system: encrypted uploads, GPG subprocesses, authentication, Jinja templates",2026-10-09,333,241,4
+kiwi,https://github.com/kiwitcms/Kiwi,master,bdeefcac75426a8ff6c10a4c95184c536e61f125,2026-10-14,python,Django,GPL-2.0,"Test case management application: file uploads, XML-RPC and JSON-RPC API, templates",2026-10-14,716,365,36
+pgadmin,https://github.com/pgadmin-org/pgadmin4,master,5f6d72c686863682d9e79166a23e269dcdf1e9a1,2026-10-14,python,Flask,PostgreSQL,"PostgreSQL administration application: runs user SQL, pg_dump and psql subprocesses, file manager, authentication",2026-10-14,1190,1227,759
+erpnext,https://github.com/frappe/erpnext,develop,9527ffc41e79454091f98c2d9fd0932ad6a2b025,2026-10-14,python,Frappe,GPL-3.0,"ERP application: frappe.db.sql raw SQL throughout, whitelisted request handlers, Jinja print formats",2026-10-14,5220,3050,794
+edx-platform,https://github.com/openedx/edx-platform,master,ce074d1155541e42f811da8e9d0891590ab73e8e,2026-10-14,python,Django,AGPL-3.0,"Open edX learning platform: sandboxed code execution, file uploads, Mako templates, authentication",2026-10-13,2188,4455,980
+intelowl,https://github.com/intelowlproject/IntelOwl,develop,862df0a04ec6caf294f49e87f28ead79691fe0af,2026-10-14,python,Django,AGPL-3.0,"Threat intelligence platform: runs analyzers on uploaded files and observables, subprocesses, REST API",2026-10-01,539,1330,293
+arches,https://github.com/archesproject/arches,dev/8.2.x,028cc114a2a5e9151fd87ef2776fa1bd3a3d01d5,2026-10-14,python,Django,AGPL-3.0,"Cultural heritage data platform: raw PostGIS SQL, file uploads, search queries",2026-10-14,459,828,455
+geonode,https://github.com/GeoNode/geonode,master,6b1aca59bb500d00f166b910307a56897734eb01,2026-10-14,python,Django,GPL-2.0,"Geospatial content management: dataset uploads, SQL against PostGIS, proxying to GeoServer",2026-10-13,646,1155,17
+ghost,https://github.com/TryGhost/Ghost,main,90392e7ada714530b0de7046a10b3e52981845f8,2026-10-14,javascript,Express,MIT,"Publishing platform: Express APIs, member authentication and payments, image uploads, Handlebars themes, Knex SQL",2026-10-14,9200,0,6898
+nodebb,https://github.com/NodeBB/NodeBB,master,1fc9d42a3e07be4d1bd2f087bfdca889faf287da,2026-10-14,javascript,Express,GPL-3.0,"Forum software: authentication, uploads, templates, database queries, plugin hooks",2026-10-13,3695,0,945
+calcom,https://github.com/calcom/cal.com,main,54343aa685ae8f33159d2f485ec4a57bad5c574a,2026-10-14,javascript,Next.js,MIT,"Scheduling application: Next.js API routes, OAuth integrations, webhooks, Prisma raw queries",2026-09-20,5851,0,5016
+documenso,https://github.com/documenso/documenso,main,d4e6eeaf880dc2b3425dcb0242b9a4206ac10443,2026-10-14,javascript,Next.js,AGPL-3.0,"Document signing application: PDF uploads and processing, authentication, signing certificates, webhooks",2026-10-14,1247,0,2232
+hoppscotch,https://github.com/hoppscotch/hoppscotch,main,63273f8e599e73f0fb38c0739314e8d46b6bc83d,2026-10-14,javascript,NestJS,MIT,"API development platform: NestJS back end, authentication, team collections, request proxying",2026-09-30,696,0,1147
+immich,https://github.com/immich-app/immich,main,83c7ec50056bbefa10869c78457f8882c72275e2,2026-10-14,javascript,NestJS,AGPL-3.0,"Photo management server: uploads, ffmpeg and other subprocesses, raw SQL through Kysely, authentication",2026-10-14,5748,39,1100
+etherpad,https://github.com/ether/etherpad-lite,develop,bb0473c650b8253ba5bf14a59a7a6d7b0c16a24e,2026-10-14,javascript,Express,Apache-2.0,"Collaborative editor server: import/export through subprocesses, plugin loading, authentication, HTML sanitizing",2026-10-13,1288,0,592
+uptime-kuma,https://github.com/louislam/uptime-kuma,master,b092505f894d66669b67f46e1da72b51016eceab,2026-10-14,javascript,Express,MIT,"Monitoring application: outbound requests to user targets, ping and other subprocesses, Knex raw SQL, authentication",2026-10-13,697,1,394
+habitica,https://github.com/HabitRPG/habitica,develop,6eceb3d7707e1c8049d36e50debb03a119057067,2026-10-14,javascript,Express,GPL-3.0,"Habit-tracking game server: Express API, authentication, payments, MongoDB queries; art assets are CC-licensed, code is GPL-3.0",2026-10-13,535,0,1222
+hedgedoc,https://github.com/hedgedoc/hedgedoc,develop,f98ea9c4079dea39a54ed6d20e9521a3039dbff7,2026-10-14,javascript,NestJS,AGPL-3.0,"Collaborative Markdown editor: NestJS back end, uploads, authentication, Markdown rendering",2026-10-14,710,0,1386
diff --git a/research/finding_identity/corpus.py b/research/finding_identity/corpus.py
new file mode 100644
index 0000000..2bfb835
--- /dev/null
+++ b/research/finding_identity/corpus.py
@@ -0,0 +1,311 @@
+"""The study corpus: load ``corpus.csv``, pin commits, and check the selection criteria.
+
+Every criterion that git can answer is measured at the pinned commit, so a check gives
+the same answer whenever it is run:
+
+- at least ``MIN_COMMITS`` first-parent commits in the ``WINDOW_DAYS`` before the pinned
+  commit (enough history for the replay, and evidence of sustained activity);
+- the pinned commit is at most ``MAX_AGE_DAYS`` older than the pinning date (the
+  project is alive);
+- the root licence file is an OSI-approved licence;
+- the root licence file is not split into separately licensed parts;
+- the declared backend language (Python, or JavaScript/TypeScript) has at least
+  ``MIN_SOURCE_FILES`` analysable files and more than the other language.
+
+"Application, not a library", "not a fork" and "not a tutorial" are judged by hand and
+recorded in the ``rationale`` column.
+"""
+
+from __future__ import annotations
+
+import csv
+import re
+import subprocess
+from collections.abc import Iterable, Sequence
+from dataclasses import asdict, dataclass, fields
+from datetime import date, datetime, timedelta, timezone
+from pathlib import Path
+
+from .scan import is_candidate
+
+MIN_COMMITS = 200
+WINDOW_DAYS = 730
+MAX_AGE_DAYS = 90
+MIN_SOURCE_FILES = 100
+
+#: SPDX identifiers of the OSI-approved licences the corpus uses.
+OSI_LICENSES = frozenset(
+    {
+        "AGPL-3.0",
+        "Apache-2.0",
+        "BSD-2-Clause",
+        "BSD-3-Clause",
+        "GPL-2.0",
+        "GPL-3.0",
+        "LGPL-3.0",
+        "MIT",
+        "MPL-2.0",
+        "PostgreSQL",
+    }
+)
+
+PY_SUFFIXES = (".py",)
+JS_SUFFIXES = (".js", ".jsx", ".mjs", ".cjs", ".ts", ".tsx", ".mts", ".cts")
+
+
+@dataclass
+class CorpusEntry:
+    """One row of ``corpus.csv``. The last four columns are measured by ``check``."""
+
+    label: str
+    url: str
+    branch: str
+    sha: str
+    pinned: str  # date the SHA was pinned, YYYY-MM-DD
+    language: str  # "python" or "javascript" (JavaScript or TypeScript)
+    framework: str
+    license: str  # SPDX identifier
+    rationale: str
+    commit_date: str = ""
+    commits_2y: str = ""
+    py_files: str = ""
+    js_files: str = ""
+
+
+COLUMNS = [f.name for f in fields(CorpusEntry)]
+
+
+def load_corpus(path: Path) -> list[CorpusEntry]:
+    with path.open(newline="", encoding="utf-8") as fh:
+        rows = list(csv.DictReader(fh))
+    entries = [CorpusEntry(**{k: (row.get(k) or "").strip() for k in COLUMNS}) for row in rows]
+    labels = [e.label for e in entries]
+    dupes = sorted({x for x in labels if labels.count(x) > 1})
+    if dupes:
+        raise ValueError(f"duplicate labels in {path}: {', '.join(dupes)}")
+    return entries
+
+
+def save_corpus(path: Path, entries: Iterable[CorpusEntry]) -> None:
+    with path.open("w", newline="", encoding="utf-8") as fh:
+        writer = csv.DictWriter(fh, fieldnames=COLUMNS, lineterminator="\n")
+        writer.writeheader()
+        writer.writerows(asdict(e) for e in entries)
+
+
+# ---------------------------------------------------------------------------
+# git
+# ---------------------------------------------------------------------------
+
+
+def _git(*args: str, cwd: Path | None = None) -> str:
+    cmd = ["git", *args] if cwd is None else ["git", "-C", str(cwd), *args]
+    return subprocess.run(cmd, check=True, capture_output=True, text=True).stdout
+
+
+def default_branch_head(url: str) -> tuple[str, str]:
+    """``(branch, sha)`` of the remote's default branch."""
+    out = _git("ls-remote", "--symref", url, "HEAD")
+    branch = sha = ""
+    for line in out.splitlines():
+        if line.startswith("ref: "):
+            branch = line.split()[1].removeprefix("refs/heads/")
+        elif line.endswith("\tHEAD"):
+            sha = line.split()[0]
+    if not branch or not sha:
+        raise RuntimeError(f"cannot resolve the default branch of {url}")
+    return branch, sha
+
+
+def has_commit(target: Path, sha: str) -> bool:
+    if not (target / ".git").exists():
+        return False
+    try:
+        _git("cat-file", "-e", f"{sha}^{{commit}}", cwd=target)
+    except subprocess.CalledProcessError:
+        return False
+    return True
+
+
+def first_parent_count(target: Path, sha: str, since: str | None = None) -> int:
+    args = ["rev-list", "--first-parent", "--count", sha]
+    if since:
+        args.insert(3, f"--since={since}")
+    return int(_git(*args, cwd=target).strip())
+
+
+def fetch_pinned(url: str, sha: str, target: Path, *, depth: int) -> None:
+    """Fetch *sha* and *depth* commits of its history into *target*, without a checkout."""
+    if not (target / ".git").exists():
+        target.mkdir(parents=True, exist_ok=True)
+        _git("init", "--quiet", cwd=target)
+        _git("remote", "add", "origin", url, cwd=target)
+    _git("fetch", "--quiet", "--no-tags", f"--depth={depth}", "origin", sha, cwd=target)
+
+
+def commit_datetime(target: Path, sha: str) -> datetime:
+    stamp = _git("show", "-s", "--format=%cI", sha, cwd=target).strip()
+    return datetime.fromisoformat(stamp)
+
+
+# ---------------------------------------------------------------------------
+# licence and language
+# ---------------------------------------------------------------------------
+
+_LICENSE_FILE = re.compile(r"^(licen[cs]e|copying)(\.(md|txt|rst))?$", re.IGNORECASE)
+_NON_OSI_MARKERS = (
+    "business source license",
+    "sustainable use license",
+    "functional source license",
+    "elastic license",
+    "commons clause",
+)
+
+
+_GNU = {
+    "gnu affero general public license": "AGPL",
+    "gnu lesser general public license": "LGPL",
+    "gnu library general public license": "LGPL",
+    "gnu general public license": "GPL",
+}
+_GNU_VERSION = re.compile(r"(?:version|v\.?)\s*(\d)")
+#: Root licences that put some directories under other (usually source-available) terms.
+_CARVE_OUT = re.compile(
+    r"portions of (?:this|the \w+) software|enterprise edition|certain files are licen"
+)
+
+
+def _gnu_license(t: str) -> str | None:
+    # The GNU licences mention each other (GPLv3 section 13 names the AGPL), so the one
+    # named first is the licence, and the version is the one stated right after it.
+    found = [(t.find(name), family) for name, family in _GNU.items() if name in t]
+    if not found:
+        return None
+    pos, family = min(found)
+    version = _GNU_VERSION.search(t, pos, pos + 250)
+    number = version.group(1) if version else "2"
+    if family == "LGPL":
+        return "LGPL-3.0" if number == "3" else "LGPL-2.1"
+    return f"{family}-{number}.0"
+
+
+def classify_license(text: str) -> str:
+    """A best-effort SPDX identifier for a licence text ("unknown" if unrecognised).
+
+    A licence that carves out separately licensed parts reads as ``mixed (...)``.
+    """
+    t = " ".join(text.lower().split())
+    for marker in _NON_OSI_MARKERS:
+        if marker in t:
+            return f"non-osi ({marker})"
+    spdx = _gnu_license(t) or _permissive_license(t)
+    return f"mixed ({spdx})" if _CARVE_OUT.search(t) else spdx
+
+
+def _permissive_license(t: str) -> str:
+    if "mozilla public license" in t and "2.0" in t:
+        return "MPL-2.0"
+    if "apache license" in t and "version 2.0" in t:
+        return "Apache-2.0"
+    if "postgresql" in t and "without a written agreement" in t:
+        return "PostgreSQL"
+    if "redistribution and use in source and binary forms" in t:
+        return "BSD-3-Clause" if "neither the name" in t else "BSD-2-Clause"
+    if "permission is hereby granted, free of charge" in t:
+        return "MIT"
+    return "unknown"
+
+
+def detect_license(target: Path, sha: str) -> str:
+    names = _git("ls-tree", "--name-only", sha, cwd=target).splitlines()
+    found = sorted(n for n in names if _LICENSE_FILE.match(n))
+    if not found:
+        return "missing"
+    return classify_license(_git("show", f"{sha}:{found[0]}", cwd=target))
+
+
+def count_source_files(paths: Sequence[str]) -> tuple[int, int]:
+    """``(python files, JavaScript/TypeScript files)`` the harness would analyse."""
+    py = js = 0
+    for p in paths:
+        if not is_candidate(p):
+            continue
+        if p.endswith(PY_SUFFIXES):
+            py += 1
+        elif p.endswith(JS_SUFFIXES):
+            js += 1
+    return py, js
+
+
+# ---------------------------------------------------------------------------
+# pin and check
+# ---------------------------------------------------------------------------
+
+
+def branch_head(url: str, branch: str) -> str:
+    out = _git("ls-remote", url, f"refs/heads/{branch}")
+    if not out.strip():
+        raise RuntimeError(f"{url} has no branch {branch!r}")
+    return out.split()[0]
+
+
+def pin(entry: CorpusEntry, today: date) -> None:
+    """Pin *entry* to the current head of its branch (the default branch if unset)."""
+    if entry.branch:
+        entry.sha = branch_head(entry.url, entry.branch)
+    else:
+        entry.branch, entry.sha = default_branch_head(entry.url)
+    entry.pinned = today.isoformat()
+
+
+def count_history(entry: CorpusEntry, workdir: Path, since: datetime) -> int:
+    """First-parent commits from *since* to the pinned commit, from a commits-only clone."""
+    target = workdir / "_history" / entry.label
+    if not target.exists():
+        target.parent.mkdir(parents=True, exist_ok=True)
+        _git(
+            "clone",
+            "--quiet",
+            "--bare",
+            "--no-tags",
+            "--filter=tree:0",
+            "--single-branch",
+            f"--branch={entry.branch}",
+            f"--shallow-since={(since - timedelta(days=1)).date().isoformat()}",
+            entry.url,
+            str(target),
+        )
+    return first_parent_count(target, entry.sha, since=since.isoformat())
+
+
+def measure(entry: CorpusEntry, workdir: Path) -> list[str]:
+    """Fill the measured columns of *entry*; return the criteria it fails."""
+    target = workdir / entry.label
+    if not has_commit(target, entry.sha):
+        fetch_pinned(entry.url, entry.sha, target, depth=1)
+    committed = commit_datetime(target, entry.sha)
+    commits = count_history(entry, workdir, committed - timedelta(days=WINDOW_DAYS))
+    paths = _git("ls-tree", "-r", "--name-only", entry.sha, cwd=target).splitlines()
+    py, js = count_source_files(paths)
+    detected = detect_license(target, entry.sha)
+
+    entry.commit_date = committed.astimezone(timezone.utc).date().isoformat()
+    entry.commits_2y = str(commits)
+    entry.py_files, entry.js_files = str(py), str(js)
+
+    problems: list[str] = []
+    if commits < MIN_COMMITS:
+        problems.append(f"only {commits} first-parent commits in {WINDOW_DAYS} days")
+    age = date.fromisoformat(entry.pinned) - committed.date()
+    if age.days > MAX_AGE_DAYS:
+        problems.append(f"pinned commit is {age.days} days old")
+    if entry.license not in OSI_LICENSES:
+        problems.append(f"declared licence {entry.license!r} is not in the OSI list")
+    if detected != entry.license:
+        problems.append(f"licence file reads as {detected}, declared {entry.license}")
+    own, other = (py, js) if entry.language == "python" else (js, py)
+    if own < MIN_SOURCE_FILES:
+        problems.append(f"only {own} {entry.language} source files")
+    if own <= other:
+        problems.append(f"{entry.language} is not the majority language ({py} py, {js} js)")
+    return problems
diff --git a/research/finding_identity/paper/false_new_by_repo.png b/research/finding_identity/paper/false_new_by_repo.png
new file mode 100644
index 0000000..83b2dfc
Binary files /dev/null and b/research/finding_identity/paper/false_new_by_repo.png differ
diff --git a/research/finding_identity/paper/per_repo.csv b/research/finding_identity/paper/per_repo.csv
new file mode 100644
index 0000000..c6649cf
--- /dev/null
+++ b/research/finding_identity/paper/per_repo.csv
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+security,hedgedoc,cg_no_mask,false_new_edited,1,1,1.000000
+security,defectdojo,cg_no_mask,hidden,0,11,0.000000
+security,saleor,cg_no_mask,hidden,0,3,0.000000
+security,netbox,cg_no_mask,hidden,0,34,0.000000
+security,zulip,cg_no_mask,hidden,0,4,0.000000
+security,healthchecks,cg_no_mask,hidden,0,0,
+security,inventree,cg_no_mask,hidden,0,3,0.000000
+security,addons-server,cg_no_mask,hidden,0,0,
+security,kitsune,cg_no_mask,hidden,0,2,0.000000
+security,readthedocs,cg_no_mask,hidden,1,4,0.250000
+security,weblate,cg_no_mask,hidden,0,0,
+security,mealie,cg_no_mask,hidden,0,2,0.000000
+security,lnbits,cg_no_mask,hidden,0,148,0.000000
+security,jumpserver,cg_no_mask,hidden,0,13,0.000000
+security,warehouse,cg_no_mask,hidden,0,2,0.000000
+security,openlibrary,cg_no_mask,hidden,0,19,0.000000
+security,ckan,cg_no_mask,hidden,0,4,0.000000
+security,indico,cg_no_mask,hidden,0,0,
+security,securedrop,cg_no_mask,hidden,0,0,
+security,kiwi,cg_no_mask,hidden,0,3,0.000000
+security,pgadmin,cg_no_mask,hidden,0,78,0.000000
+security,erpnext,cg_no_mask,hidden,0,0,
+security,edx-platform,cg_no_mask,hidden,0,7,0.000000
+security,intelowl,cg_no_mask,hidden,0,8,0.000000
+security,arches,cg_no_mask,hidden,0,3,0.000000
+security,geonode,cg_no_mask,hidden,0,3,0.000000
+security,ghost,cg_no_mask,hidden,0,43,0.000000
+security,nodebb,cg_no_mask,hidden,3,7,0.428571
+security,calcom,cg_no_mask,hidden,13,82,0.158537
+security,documenso,cg_no_mask,hidden,0,43,0.000000
+security,hoppscotch,cg_no_mask,hidden,0,82,0.000000
+security,immich,cg_no_mask,hidden,0,3,0.000000
+security,etherpad,cg_no_mask,hidden,0,7,0.000000
+security,uptime-kuma,cg_no_mask,hidden,0,21,0.000000
+security,habitica,cg_no_mask,hidden,1,4,0.250000
+security,hedgedoc,cg_no_mask,hidden,0,5,0.000000
+security,defectdojo,cg_no_mask,mispair,0,19,0.000000
+security,saleor,cg_no_mask,mispair,0,72,0.000000
+security,netbox,cg_no_mask,mispair,0,40,0.000000
+security,zulip,cg_no_mask,mispair,0,120,0.000000
+security,healthchecks,cg_no_mask,mispair,0,91,0.000000
+security,inventree,cg_no_mask,mispair,0,37,0.000000
+security,addons-server,cg_no_mask,mispair,0,41,0.000000
+security,kitsune,cg_no_mask,mispair,0,104,0.000000
+security,readthedocs,cg_no_mask,mispair,0,204,0.000000
+security,weblate,cg_no_mask,mispair,0,42,0.000000
+security,mealie,cg_no_mask,mispair,0,26,0.000000
+security,lnbits,cg_no_mask,mispair,0,1708,0.000000
+security,jumpserver,cg_no_mask,mispair,0,89,0.000000
+security,warehouse,cg_no_mask,mispair,0,66,0.000000
+security,openlibrary,cg_no_mask,mispair,0,195,0.000000
+security,ckan,cg_no_mask,mispair,0,30,0.000000
+security,indico,cg_no_mask,mispair,0,10,0.000000
+security,securedrop,cg_no_mask,mispair,0,94,0.000000
+security,kiwi,cg_no_mask,mispair,0,31,0.000000
+security,pgadmin,cg_no_mask,mispair,0,88,0.000000
+security,erpnext,cg_no_mask,mispair,0,1,0.000000
+security,edx-platform,cg_no_mask,mispair,0,194,0.000000
+security,intelowl,cg_no_mask,mispair,0,43,0.000000
+security,arches,cg_no_mask,mispair,0,94,0.000000
+security,geonode,cg_no_mask,mispair,0,107,0.000000
+security,ghost,cg_no_mask,mispair,0,192,0.000000
+security,nodebb,cg_no_mask,mispair,5,591,0.008460
+security,calcom,cg_no_mask,mispair,22,655,0.033588
+security,documenso,cg_no_mask,mispair,0,155,0.000000
+security,hoppscotch,cg_no_mask,mispair,0,235,0.000000
+security,immich,cg_no_mask,mispair,0,178,0.000000
+security,etherpad,cg_no_mask,mispair,0,33,0.000000
+security,uptime-kuma,cg_no_mask,mispair,0,95,0.000000
+security,habitica,cg_no_mask,mispair,17,78,0.217949
+security,hedgedoc,cg_no_mask,mispair,0,36,0.000000
+security,defectdojo,cg_no_mask,collision,4,46,0.086957
+security,saleor,cg_no_mask,collision,0,122,0.000000
+security,netbox,cg_no_mask,collision,8,83,0.096386
+security,zulip,cg_no_mask,collision,22,236,0.093220
+security,healthchecks,cg_no_mask,collision,0,97,0.000000
+security,inventree,cg_no_mask,collision,2,78,0.025641
+security,addons-server,cg_no_mask,collision,0,55,0.000000
+security,kitsune,cg_no_mask,collision,48,156,0.307692
+security,readthedocs,cg_no_mask,collision,44,245,0.179592
+security,weblate,cg_no_mask,collision,0,65,0.000000
+security,mealie,cg_no_mask,collision,0,37,0.000000
+security,lnbits,cg_no_mask,collision,73,2150,0.033953
+security,jumpserver,cg_no_mask,collision,30,129,0.232558
+security,warehouse,cg_no_mask,collision,13,90,0.144444
+security,openlibrary,cg_no_mask,collision,65,291,0.223368
+security,ckan,cg_no_mask,collision,0,52,0.000000
+security,indico,cg_no_mask,collision,6,18,0.333333
+security,securedrop,cg_no_mask,collision,0,133,0.000000
+security,kiwi,cg_no_mask,collision,4,42,0.095238
+security,pgadmin,cg_no_mask,collision,45,207,0.217391
+security,erpnext,cg_no_mask,collision,0,2,0.000000
+security,edx-platform,cg_no_mask,collision,0,277,0.000000
+security,intelowl,cg_no_mask,collision,14,87,0.160920
+security,arches,cg_no_mask,collision,34,131,0.259542
+security,geonode,cg_no_mask,collision,0,145,0.000000
+security,ghost,cg_no_mask,collision,61,302,0.201987
+security,nodebb,cg_no_mask,collision,197,756,0.260582
+security,calcom,cg_no_mask,collision,855,1335,0.640449
+security,documenso,cg_no_mask,collision,176,306,0.575163
+security,hoppscotch,cg_no_mask,collision,88,387,0.227390
+security,immich,cg_no_mask,collision,56,230,0.243478
+security,etherpad,cg_no_mask,collision,2,65,0.030769
+security,uptime-kuma,cg_no_mask,collision,20,138,0.144928
+security,habitica,cg_no_mask,collision,75,142,0.528169
+security,hedgedoc,cg_no_mask,collision,12,68,0.176471
+security,defectdojo,cg_raw,false_new,0,19,0.000000
+security,saleor,cg_raw,false_new,0,72,0.000000
+security,netbox,cg_raw,false_new,0,40,0.000000
+security,zulip,cg_raw,false_new,0,120,0.000000
+security,healthchecks,cg_raw,false_new,0,91,0.000000
+security,inventree,cg_raw,false_new,0,37,0.000000
+security,addons-server,cg_raw,false_new,0,41,0.000000
+security,kitsune,cg_raw,false_new,0,104,0.000000
+security,readthedocs,cg_raw,false_new,1,204,0.004902
+security,weblate,cg_raw,false_new,0,42,0.000000
+security,mealie,cg_raw,false_new,0,26,0.000000
+security,lnbits,cg_raw,false_new,3,1708,0.001756
+security,jumpserver,cg_raw,false_new,1,89,0.011236
+security,warehouse,cg_raw,false_new,1,66,0.015152
+security,openlibrary,cg_raw,false_new,8,195,0.041026
+security,ckan,cg_raw,false_new,0,30,0.000000
+security,indico,cg_raw,false_new,0,10,0.000000
+security,securedrop,cg_raw,false_new,0,94,0.000000
+security,kiwi,cg_raw,false_new,1,31,0.032258
+security,pgadmin,cg_raw,false_new,1,88,0.011364
+security,erpnext,cg_raw,false_new,0,1,0.000000
+security,edx-platform,cg_raw,false_new,2,194,0.010309
+security,intelowl,cg_raw,false_new,2,43,0.046512
+security,arches,cg_raw,false_new,1,94,0.010638
+security,geonode,cg_raw,false_new,1,107,0.009346
+security,ghost,cg_raw,false_new,37,192,0.192708
+security,nodebb,cg_raw,false_new,2,591,0.003384
+security,calcom,cg_raw,false_new,41,655,0.062595
+security,documenso,cg_raw,false_new,1,155,0.006452
+security,hoppscotch,cg_raw,false_new,0,235,0.000000
+security,immich,cg_raw,false_new,0,178,0.000000
+security,etherpad,cg_raw,false_new,0,33,0.000000
+security,uptime-kuma,cg_raw,false_new,6,95,0.063158
+security,habitica,cg_raw,false_new,1,78,0.012821
+security,hedgedoc,cg_raw,false_new,1,36,0.027778
+security,defectdojo,cg_raw,false_new_moved,0,19,0.000000
+security,saleor,cg_raw,false_new_moved,0,72,0.000000
+security,netbox,cg_raw,false_new_moved,0,40,0.000000
+security,zulip,cg_raw,false_new_moved,0,120,0.000000
+security,healthchecks,cg_raw,false_new_moved,0,91,0.000000
+security,inventree,cg_raw,false_new_moved,0,37,0.000000
+security,addons-server,cg_raw,false_new_moved,0,41,0.000000
+security,kitsune,cg_raw,false_new_moved,0,104,0.000000
+security,readthedocs,cg_raw,false_new_moved,1,204,0.004902
+security,weblate,cg_raw,false_new_moved,0,42,0.000000
+security,mealie,cg_raw,false_new_moved,0,26,0.000000
+security,lnbits,cg_raw,false_new_moved,0,1705,0.000000
+security,jumpserver,cg_raw,false_new_moved,0,88,0.000000
+security,warehouse,cg_raw,false_new_moved,0,65,0.000000
+security,openlibrary,cg_raw,false_new_moved,5,192,0.026042
+security,ckan,cg_raw,false_new_moved,0,30,0.000000
+security,indico,cg_raw,false_new_moved,0,10,0.000000
+security,securedrop,cg_raw,false_new_moved,0,94,0.000000
+security,kiwi,cg_raw,false_new_moved,0,30,0.000000
+security,pgadmin,cg_raw,false_new_moved,0,87,0.000000
+security,erpnext,cg_raw,false_new_moved,0,1,0.000000
+security,edx-platform,cg_raw,false_new_moved,0,192,0.000000
+security,intelowl,cg_raw,false_new_moved,0,41,0.000000
+security,arches,cg_raw,false_new_moved,0,93,0.000000
+security,geonode,cg_raw,false_new_moved,0,106,0.000000
+security,ghost,cg_raw,false_new_moved,34,189,0.179894
+security,nodebb,cg_raw,false_new_moved,2,591,0.003384
+security,calcom,cg_raw,false_new_moved,38,652,0.058282
+security,documenso,cg_raw,false_new_moved,0,154,0.000000
+security,hoppscotch,cg_raw,false_new_moved,0,235,0.000000
+security,immich,cg_raw,false_new_moved,0,178,0.000000
+security,etherpad,cg_raw,false_new_moved,0,33,0.000000
+security,uptime-kuma,cg_raw,false_new_moved,5,94,0.053191
+security,habitica,cg_raw,false_new_moved,1,78,0.012821
+security,hedgedoc,cg_raw,false_new_moved,0,35,0.000000
+security,defectdojo,cg_raw,false_new_edited,0,0,
+security,saleor,cg_raw,false_new_edited,0,0,
+security,netbox,cg_raw,false_new_edited,0,0,
+security,zulip,cg_raw,false_new_edited,0,0,
+security,healthchecks,cg_raw,false_new_edited,0,0,
+security,inventree,cg_raw,false_new_edited,0,0,
+security,addons-server,cg_raw,false_new_edited,0,0,
+security,kitsune,cg_raw,false_new_edited,0,0,
+security,readthedocs,cg_raw,false_new_edited,0,0,
+security,weblate,cg_raw,false_new_edited,0,0,
+security,mealie,cg_raw,false_new_edited,0,0,
+security,lnbits,cg_raw,false_new_edited,3,3,1.000000
+security,jumpserver,cg_raw,false_new_edited,1,1,1.000000
+security,warehouse,cg_raw,false_new_edited,1,1,1.000000
+security,openlibrary,cg_raw,false_new_edited,3,3,1.000000
+security,ckan,cg_raw,false_new_edited,0,0,
+security,indico,cg_raw,false_new_edited,0,0,
+security,securedrop,cg_raw,false_new_edited,0,0,
+security,kiwi,cg_raw,false_new_edited,1,1,1.000000
+security,pgadmin,cg_raw,false_new_edited,1,1,1.000000
+security,erpnext,cg_raw,false_new_edited,0,0,
+security,edx-platform,cg_raw,false_new_edited,2,2,1.000000
+security,intelowl,cg_raw,false_new_edited,2,2,1.000000
+security,arches,cg_raw,false_new_edited,1,1,1.000000
+security,geonode,cg_raw,false_new_edited,1,1,1.000000
+security,ghost,cg_raw,false_new_edited,3,3,1.000000
+security,nodebb,cg_raw,false_new_edited,0,0,
+security,calcom,cg_raw,false_new_edited,3,3,1.000000
+security,documenso,cg_raw,false_new_edited,1,1,1.000000
+security,hoppscotch,cg_raw,false_new_edited,0,0,
+security,immich,cg_raw,false_new_edited,0,0,
+security,etherpad,cg_raw,false_new_edited,0,0,
+security,uptime-kuma,cg_raw,false_new_edited,1,1,1.000000
+security,habitica,cg_raw,false_new_edited,0,0,
+security,hedgedoc,cg_raw,false_new_edited,1,1,1.000000
+security,defectdojo,cg_raw,hidden,0,11,0.000000
+security,saleor,cg_raw,hidden,0,3,0.000000
+security,netbox,cg_raw,hidden,0,34,0.000000
+security,zulip,cg_raw,hidden,0,4,0.000000
+security,healthchecks,cg_raw,hidden,0,0,
+security,inventree,cg_raw,hidden,0,3,0.000000
+security,addons-server,cg_raw,hidden,0,0,
+security,kitsune,cg_raw,hidden,0,2,0.000000
+security,readthedocs,cg_raw,hidden,1,4,0.250000
+security,weblate,cg_raw,hidden,0,0,
+security,mealie,cg_raw,hidden,0,2,0.000000
+security,lnbits,cg_raw,hidden,0,148,0.000000
+security,jumpserver,cg_raw,hidden,0,13,0.000000
+security,warehouse,cg_raw,hidden,0,2,0.000000
+security,openlibrary,cg_raw,hidden,0,19,0.000000
+security,ckan,cg_raw,hidden,0,4,0.000000
+security,indico,cg_raw,hidden,0,0,
+security,securedrop,cg_raw,hidden,0,0,
+security,kiwi,cg_raw,hidden,0,3,0.000000
+security,pgadmin,cg_raw,hidden,0,78,0.000000
+security,erpnext,cg_raw,hidden,0,0,
+security,edx-platform,cg_raw,hidden,0,7,0.000000
+security,intelowl,cg_raw,hidden,0,8,0.000000
+security,arches,cg_raw,hidden,0,3,0.000000
+security,geonode,cg_raw,hidden,0,3,0.000000
+security,ghost,cg_raw,hidden,0,43,0.000000
+security,nodebb,cg_raw,hidden,2,7,0.285714
+security,calcom,cg_raw,hidden,7,82,0.085366
+security,documenso,cg_raw,hidden,0,43,0.000000
+security,hoppscotch,cg_raw,hidden,0,82,0.000000
+security,immich,cg_raw,hidden,0,3,0.000000
+security,etherpad,cg_raw,hidden,0,7,0.000000
+security,uptime-kuma,cg_raw,hidden,0,21,0.000000
+security,habitica,cg_raw,hidden,1,4,0.250000
+security,hedgedoc,cg_raw,hidden,0,5,0.000000
+security,defectdojo,cg_raw,mispair,0,19,0.000000
+security,saleor,cg_raw,mispair,0,72,0.000000
+security,netbox,cg_raw,mispair,0,40,0.000000
+security,zulip,cg_raw,mispair,0,120,0.000000
+security,healthchecks,cg_raw,mispair,0,91,0.000000
+security,inventree,cg_raw,mispair,0,37,0.000000
+security,addons-server,cg_raw,mispair,0,41,0.000000
+security,kitsune,cg_raw,mispair,0,104,0.000000
+security,readthedocs,cg_raw,mispair,0,204,0.000000
+security,weblate,cg_raw,mispair,0,42,0.000000
+security,mealie,cg_raw,mispair,0,26,0.000000
+security,lnbits,cg_raw,mispair,0,1708,0.000000
+security,jumpserver,cg_raw,mispair,0,89,0.000000
+security,warehouse,cg_raw,mispair,0,66,0.000000
+security,openlibrary,cg_raw,mispair,0,195,0.000000
+security,ckan,cg_raw,mispair,0,30,0.000000
+security,indico,cg_raw,mispair,0,10,0.000000
+security,securedrop,cg_raw,mispair,0,94,0.000000
+security,kiwi,cg_raw,mispair,0,31,0.000000
+security,pgadmin,cg_raw,mispair,0,88,0.000000
+security,erpnext,cg_raw,mispair,0,1,0.000000
+security,edx-platform,cg_raw,mispair,0,194,0.000000
+security,intelowl,cg_raw,mispair,0,43,0.000000
+security,arches,cg_raw,mispair,0,94,0.000000
+security,geonode,cg_raw,mispair,0,107,0.000000
+security,ghost,cg_raw,mispair,0,192,0.000000
+security,nodebb,cg_raw,mispair,4,591,0.006768
+security,calcom,cg_raw,mispair,13,655,0.019847
+security,documenso,cg_raw,mispair,0,155,0.000000
+security,hoppscotch,cg_raw,mispair,0,235,0.000000
+security,immich,cg_raw,mispair,0,178,0.000000
+security,etherpad,cg_raw,mispair,0,33,0.000000
+security,uptime-kuma,cg_raw,mispair,0,95,0.000000
+security,habitica,cg_raw,mispair,13,78,0.166667
+security,hedgedoc,cg_raw,mispair,0,36,0.000000
+security,defectdojo,cg_raw,collision,4,46,0.086957
+security,saleor,cg_raw,collision,0,122,0.000000
+security,netbox,cg_raw,collision,8,83,0.096386
+security,zulip,cg_raw,collision,20,236,0.084746
+security,healthchecks,cg_raw,collision,0,97,0.000000
+security,inventree,cg_raw,collision,2,78,0.025641
+security,addons-server,cg_raw,collision,0,55,0.000000
+security,kitsune,cg_raw,collision,48,156,0.307692
+security,readthedocs,cg_raw,collision,44,245,0.179592
+security,weblate,cg_raw,collision,0,65,0.000000
+security,mealie,cg_raw,collision,0,37,0.000000
+security,lnbits,cg_raw,collision,61,2150,0.028372
+security,jumpserver,cg_raw,collision,30,129,0.232558
+security,warehouse,cg_raw,collision,10,90,0.111111
+security,openlibrary,cg_raw,collision,50,291,0.171821
+security,ckan,cg_raw,collision,0,52,0.000000
+security,indico,cg_raw,collision,6,18,0.333333
+security,securedrop,cg_raw,collision,0,133,0.000000
+security,kiwi,cg_raw,collision,0,42,0.000000
+security,pgadmin,cg_raw,collision,35,207,0.169082
+security,erpnext,cg_raw,collision,0,2,0.000000
+security,edx-platform,cg_raw,collision,0,277,0.000000
+security,intelowl,cg_raw,collision,14,87,0.160920
+security,arches,cg_raw,collision,28,131,0.213740
+security,geonode,cg_raw,collision,0,145,0.000000
+security,ghost,cg_raw,collision,57,302,0.188742
+security,nodebb,cg_raw,collision,189,756,0.250000
+security,calcom,cg_raw,collision,785,1335,0.588015
+security,documenso,cg_raw,collision,162,306,0.529412
+security,hoppscotch,cg_raw,collision,54,387,0.139535
+security,immich,cg_raw,collision,56,230,0.243478
+security,etherpad,cg_raw,collision,0,65,0.000000
+security,uptime-kuma,cg_raw,collision,16,138,0.115942
+security,habitica,cg_raw,collision,73,142,0.514085
+security,hedgedoc,cg_raw,collision,4,68,0.058824
diff --git a/research/finding_identity/paper/per_repo.md b/research/finding_identity/paper/per_repo.md
new file mode 100644
index 0000000..51e2e1f
--- /dev/null
+++ b/research/finding_identity/paper/per_repo.md
@@ -0,0 +1,79 @@
+### All findings: false-new rate per repository (%)
+
+| repository | known | `line` | `line_text` | `github` | `codeguard` | `cg_no_scope` | `cg_no_mask` | `cg_raw` |
+|---|---:|---:|---:|---:|---:|---:|---:|---:|
+| defectdojo | 420 | 49.52 | 0.95 | 1.43 | 0.95 | 0.95 | 0.95 | 0.95 |
+| saleor | 610 | 68.03 | 0.00 | 0.49 | 0.00 | 0.00 | 0.00 | 0.00 |
+| netbox | 367 | 71.39 | 0.27 | 1.36 | 0.00 | 0.27 | 0.00 | 0.00 |
+| zulip | 785 | 53.25 | 0.25 | 0.64 | 0.13 | 0.13 | 0.25 | 0.25 |
+| healthchecks | 414 | 29.95 | 0.72 | 2.42 | 0.48 | 0.48 | 0.72 | 0.72 |
+| inventree | 911 | 62.13 | 0.22 | 0.88 | 0.11 | 0.33 | 0.11 | 0.22 |
+| addons-server | 554 | 42.96 | 0.36 | 1.62 | 0.36 | 0.36 | 0.36 | 0.36 |
+| kitsune | 910 | 46.59 | 0.22 | 2.09 | 0.33 | 0.33 | 0.33 | 0.22 |
+| readthedocs | 302 | 48.34 | 0.33 | 0.99 | 0.33 | 0.33 | 0.33 | 0.33 |
+| weblate | 241 | 68.05 | 0.41 | 0.83 | 0.00 | 0.00 | 0.00 | 0.41 |
+| mealie | 118 | 57.63 | 0.00 | 0.85 | 0.00 | 0.00 | 0.00 | 0.00 |
+| lnbits | 2230 | 46.73 | 0.18 | 1.43 | 0.18 | 0.49 | 0.22 | 0.18 |
+| jumpserver | 355 | 58.59 | 0.56 | 2.25 | 0.56 | 0.56 | 0.56 | 0.56 |
+| warehouse | 167 | 61.08 | 0.60 | 2.99 | 0.60 | 0.60 | 0.60 | 0.60 |
+| openlibrary | 663 | 55.81 | 2.11 | 4.07 | 1.96 | 1.36 | 1.96 | 2.71 |
+| ckan | 742 | 43.26 | 1.75 | 4.58 | 1.35 | 1.35 | 1.35 | 1.75 |
+| indico | 284 | 50.35 | 1.41 | 2.11 | 1.41 | 1.41 | 1.41 | 1.41 |
+| securedrop | 225 | 46.67 | 0.00 | 1.33 | 0.00 | 0.00 | 0.00 | 0.00 |
+| kiwi | 56 | 50.00 | 1.79 | 1.79 | 0.00 | 0.00 | 0.00 | 1.79 |
+| pgadmin | 920 | 64.02 | 1.20 | 1.85 | 1.20 | 1.20 | 1.20 | 1.20 |
+| erpnext | 1355 | 40.15 | 0.37 | 1.55 | 0.22 | 0.15 | 0.37 | 0.44 |
+| edx-platform | 599 | 58.76 | 0.67 | 1.00 | 0.17 | 0.17 | 0.17 | 0.67 |
+| intelowl | 117 | 64.96 | 1.71 | 7.69 | 0.85 | 0.85 | 1.71 | 1.71 |
+| arches | 2635 | 43.76 | 0.57 | 1.71 | 0.57 | 0.57 | 0.57 | 0.57 |
+| geonode | 922 | 43.06 | 0.43 | 1.52 | 0.22 | 0.33 | 0.33 | 0.33 |
+| ghost | 687 | 66.81 | 20.09 | 22.27 | 19.94 | 19.94 | 19.94 | 20.09 |
+| nodebb | 964 | 37.24 | 0.41 | 0.93 | 0.52 | 0.52 | 0.52 | 0.41 |
+| calcom | 1183 | 74.47 | 6.17 | 7.69 | 6.00 | 6.00 | 6.09 | 6.17 |
+| documenso | 643 | 54.43 | 2.02 | 3.11 | 2.18 | 2.18 | 2.02 | 2.02 |
+| hoppscotch | 1246 | 62.04 | 5.70 | 7.06 | 5.38 | 5.38 | 5.38 | 5.70 |
+| immich | 445 | 44.27 | 0.45 | 2.02 | 0.22 | 0.22 | 0.22 | 0.45 |
+| etherpad | 91 | 68.13 | 0.00 | 3.30 | 0.00 | 0.00 | 0.00 | 0.00 |
+| uptime-kuma | 792 | 64.77 | 3.79 | 4.80 | 3.66 | 3.66 | 3.79 | 3.79 |
+| habitica | 236 | 55.93 | 3.39 | 6.78 | 3.81 | 3.81 | 3.39 | 3.39 |
+| hedgedoc | 48 | 54.17 | 6.25 | 8.33 | 6.25 | 6.25 | 6.25 | 6.25 |
+
+### Security findings: false-new rate per repository (%)
+
+| repository | known | `line` | `line_text` | `github` | `codeguard` | `cg_no_scope` | `cg_no_mask` | `cg_raw` |
+|---|---:|---:|---:|---:|---:|---:|---:|---:|
+| defectdojo | 19 | 73.68 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 |
+| saleor | 72 | 41.67 | 0.00 | 1.39 | 0.00 | 0.00 | 0.00 | 0.00 |
+| netbox | 40 | 77.50 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 |
+| zulip | 120 | 39.17 | 0.00 | 0.83 | 0.00 | 0.00 | 0.00 | 0.00 |
+| healthchecks | 91 | 58.24 | 0.00 | 1.10 | 0.00 | 0.00 | 0.00 | 0.00 |
+| inventree | 37 | 67.57 | 0.00 | 2.70 | 0.00 | 0.00 | 0.00 | 0.00 |
+| addons-server | 41 | 56.10 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 |
+| kitsune | 104 | 31.73 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 |
+| readthedocs | 204 | 46.08 | 0.49 | 0.98 | 0.49 | 0.49 | 0.49 | 0.49 |
+| weblate | 42 | 45.24 | 0.00 | 2.38 | 0.00 | 0.00 | 0.00 | 0.00 |
+| mealie | 26 | 34.62 | 0.00 | 3.85 | 0.00 | 0.00 | 0.00 | 0.00 |
+| lnbits | 1708 | 40.57 | 0.18 | 1.41 | 0.12 | 0.53 | 0.18 | 0.18 |
+| jumpserver | 89 | 71.91 | 1.12 | 1.12 | 1.12 | 1.12 | 1.12 | 1.12 |
+| warehouse | 66 | 62.12 | 1.52 | 3.03 | 1.52 | 1.52 | 1.52 | 1.52 |
+| openlibrary | 195 | 55.90 | 2.05 | 3.59 | 3.59 | 1.54 | 3.59 | 4.10 |
+| ckan | 30 | 36.67 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 |
+| indico | 10 | 50.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 |
+| securedrop | 94 | 37.23 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 |
+| kiwi | 31 | 45.16 | 3.23 | 3.23 | 0.00 | 0.00 | 0.00 | 3.23 |
+| pgadmin | 88 | 61.36 | 1.14 | 2.27 | 1.14 | 1.14 | 1.14 | 1.14 |
+| erpnext | 1 | 100.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 |
+| edx-platform | 194 | 52.58 | 1.03 | 1.03 | 0.00 | 0.00 | 0.00 | 1.03 |
+| intelowl | 43 | 51.16 | 4.65 | 16.28 | 2.33 | 2.33 | 4.65 | 4.65 |
+| arches | 94 | 45.74 | 1.06 | 6.38 | 1.06 | 1.06 | 1.06 | 1.06 |
+| geonode | 107 | 53.27 | 1.87 | 0.93 | 0.00 | 0.93 | 0.93 | 0.93 |
+| ghost | 192 | 65.10 | 19.27 | 21.88 | 18.75 | 18.75 | 18.75 | 19.27 |
+| nodebb | 591 | 30.80 | 0.34 | 0.34 | 0.51 | 0.51 | 0.51 | 0.34 |
+| calcom | 655 | 81.37 | 6.26 | 7.48 | 6.72 | 6.72 | 6.72 | 6.26 |
+| documenso | 155 | 70.97 | 0.65 | 2.58 | 2.58 | 2.58 | 0.65 | 0.65 |
+| hoppscotch | 235 | 56.60 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 |
+| immich | 178 | 30.90 | 0.00 | 0.56 | 0.00 | 0.00 | 0.00 | 0.00 |
+| etherpad | 33 | 72.73 | 0.00 | 9.09 | 0.00 | 0.00 | 0.00 | 0.00 |
+| uptime-kuma | 95 | 73.68 | 6.32 | 8.42 | 5.26 | 5.26 | 6.32 | 6.32 |
+| habitica | 78 | 74.36 | 1.28 | 3.85 | 2.56 | 2.56 | 1.28 | 1.28 |
+| hedgedoc | 36 | 52.78 | 2.78 | 5.56 | 2.78 | 2.78 | 2.78 | 2.78 |
diff --git a/research/finding_identity/paper/pooled.csv b/research/finding_identity/paper/pooled.csv
new file mode 100644
index 0000000..ac51601
--- /dev/null
+++ b/research/finding_identity/paper/pooled.csv
@@ -0,0 +1,85 @@
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+security,cg_no_scope,mispair,35,35,74,5794,0.012772,0.010186,0.016003,0.003027,0.027793,0.012589,0.001221,0.031048,0.000000,0.000000,0.000000
+security,cg_no_scope,collision,35,35,3639,8703,0.418132,0.407807,0.428529,0.284261,0.576646,0.359617,0.278966,0.445236,0.346154,0.183903,0.498311
+security,cg_no_mask,false_new,35,35,110,5794,0.018985,0.015777,0.022831,0.004416,0.042854,0.014765,0.005526,0.027873,0.000000,0.000000,0.011300
+security,cg_no_mask,false_new_moved,35,35,90,5769,0.015601,0.012710,0.019136,0.001788,0.038082,0.009852,0.001660,0.022307,0.000000,0.000000,0.000000
+security,cg_no_mask,false_new_edited,35,15,20,25,0.800000,0.608690,0.911394,0.607143,0.958333,0.822222,0.625000,0.976190,1.000000,0.833333,1.000000
+security,cg_no_mask,hidden,35,29,18,648,0.027778,0.017642,0.043480,0.001587,0.073078,0.037486,0.005872,0.078615,0.000000,0.000000,0.000000
+security,cg_no_mask,mispair,35,35,44,5794,0.007594,0.005662,0.010179,0.000000,0.019168,0.007428,0.000000,0.020842,0.000000,0.000000,0.000000
+security,cg_no_mask,collision,35,35,1954,8703,0.224520,0.215876,0.233407,0.099976,0.384406,0.157703,0.106741,0.215057,0.144444,0.000000,0.229974
+security,cg_raw,false_new,35,35,111,5794,0.019158,0.015934,0.023019,0.004850,0.042983,0.016097,0.006725,0.029388,0.001756,0.000000,0.012092
+security,cg_raw,false_new_moved,35,35,86,5769,0.014907,0.012087,0.018373,0.001594,0.036712,0.009672,0.001605,0.022064,0.000000,0.000000,0.000000
+security,cg_raw,false_new_edited,35,15,25,25,1.000000,0.866808,1.000000,1.000000,1.000000,1.000000,1.000000,1.000000,1.000000,1.000000,1.000000
+security,cg_raw,hidden,35,29,11,648,0.016975,0.009505,0.030139,0.001585,0.042828,0.030037,0.003162,0.062662,0.000000,0.000000,0.000000
+security,cg_raw,mispair,35,35,30,5794,0.005178,0.003629,0.007382,0.000000,0.013271,0.005522,0.000000,0.015613,0.000000,0.000000,0.000000
+security,cg_raw,collision,35,35,1756,8703,0.201770,0.193470,0.210332,0.086521,0.350409,0.138000,0.089963,0.193162,0.096386,0.000000,0.201241
diff --git a/research/finding_identity/paper/repos.csv b/research/finding_identity/paper/repos.csv
new file mode 100644
index 0000000..b40f83e
--- /dev/null
+++ b/research/finding_identity/paper/repos.csv
@@ -0,0 +1,36 @@
+label,head,commit_pairs,versions_scanned,elapsed_seconds,all_observations,all_known,all_introduced,security_observations,security_known,security_introduced
+defectdojo,559a677f183c0083cd78906be1527b3eb1a2dfb7,200,578,38.700000,700,420,21,46,19,11
+saleor,925b69959a97c9deda7cdc85092494896d0aa1f4,200,1624,95.900000,1066,610,40,122,72,3
+netbox,0c2635e0b86096e1937976ce9158e139dff108dd,200,1302,130.000000,553,367,67,83,40,34
+zulip,85f6f243094f7a2bdff42f565763eb2bf68d5f6a,200,755,150.700000,1298,785,16,236,120,4
+healthchecks,ea65922ae6b3bdf3cf4cb4e3a5ed5f6e660c31ed,200,717,22.100000,615,414,13,97,91,0
+inventree,720ba157bb006cb0edcebe9dba05a2b9d0a3d7ba,200,1378,104.200000,1352,911,41,78,37,3
+addons-server,1acac15ee405a6664eb02c2a991b99e6f53cf22f,200,730,92.000000,776,554,1,55,41,0
+kitsune,522df66df0ff55f8e3406dfe5c8ee6b7fe8cc8e5,200,734,44.100000,1396,910,56,156,104,2
+readthedocs,90e0eb5a328bd5c973067b2b4b412c787afebe73,200,609,40.800000,383,302,6,245,204,4
+weblate,5b328473a12d06dac172f9bd90f3ebeb3edef1f6,200,332,86.200000,393,241,16,65,42,0
+mealie,1eced44c96664e8263e817317c87e7fc2ce85790,200,596,21.400000,186,118,7,37,26,2
+lnbits,dc24c15f4735871c382ca96827a62224852d39e4,200,1037,76.200000,2969,2230,352,2150,1708,148
+jumpserver,ac331bb74f054883ffea1559c8a044eb66fcd794,200,793,29.200000,497,355,50,129,89,13
+warehouse,8a4943e82c7f5f3e26ab1c9688f5cb141030050e,200,692,68.700000,230,167,12,90,66,2
+openlibrary,083e584de8fa360dba048f643076e04c210429a8,200,1358,87.500000,973,663,71,291,195,19
+ckan,94a2156b7ae8156b8ef478648a90095313134781,200,647,55.400000,1605,742,66,52,30,4
+indico,b373431fd7a06849bb112cdbca60abbcfc5a0b21,200,655,34.600000,406,284,5,18,10,0
+securedrop,fb5c1f153ebef7c5057cd3c7b69fadd49bcc83f4,200,364,20.000000,323,225,11,133,94,0
+kiwi,bdeefcac75426a8ff6c10a4c95184c536e61f125,200,417,12.700000,79,56,3,42,31,3
+pgadmin,5f6d72c686863682d9e79166a23e269dcdf1e9a1,200,497,41.200000,1532,920,152,207,88,78
+erpnext,9527ffc41e79454091f98c2d9fd0932ad6a2b025,200,1030,134.900000,2141,1355,23,2,1,0
+edx-platform,ce074d1155541e42f811da8e9d0891590ab73e8e,200,1142,87.800000,934,599,12,277,194,7
+intelowl,862df0a04ec6caf294f49e87f28ead79691fe0af,200,1381,32.300000,224,117,25,87,43,8
+arches,028cc114a2a5e9151fd87ef2776fa1bd3a3d01d5,200,1083,57.400000,4023,2635,107,131,94,3
+geonode,6b1aca59bb500d00f166b910307a56897734eb01,200,645,56.700000,1229,922,8,145,107,3
+ghost,90392e7ada714530b0de7046a10b3e52981845f8,200,1596,125.500000,1063,687,77,302,192,43
+nodebb,1fc9d42a3e07be4d1bd2f087bfdca889faf287da,200,506,94.600000,1276,964,24,756,591,7
+calcom,54343aa685ae8f33159d2f485ec4a57bad5c574a,200,5131,271.700000,2661,1183,104,1335,655,82
+documenso,d4e6eeaf880dc2b3425dcb0242b9a4206ac10443,200,2260,116.600000,1269,643,225,306,155,43
+hoppscotch,63273f8e599e73f0fb38c0739314e8d46b6bc83d,200,1286,122.700000,1894,1246,222,387,235,82
+immich,83c7ec50056bbefa10869c78457f8882c72275e2,200,599,100.300000,642,445,27,230,178,3
+etherpad,bb0473c650b8253ba5bf14a59a7a6d7b0c16a24e,200,133,14.400000,190,91,29,65,33,7
+uptime-kuma,b092505f894d66669b67f46e1da72b51016eceab,200,439,41.500000,930,792,68,138,95,21
+habitica,6eceb3d7707e1c8049d36e50debb03a119057067,200,618,55.800000,329,236,6,142,78,4
+hedgedoc,f98ea9c4079dea39a54ed6d20e9521a3039dbff7,200,611,20.400000,95,48,11,68,36,5
diff --git a/research/finding_identity/paper/tables.md b/research/finding_identity/paper/tables.md
new file mode 100644
index 0000000..5b57494
--- /dev/null
+++ b/research/finding_identity/paper/tables.md
@@ -0,0 +1,49 @@
+### All findings
+
+35 repositories, 35 of them with persisting findings: 23237 persisting findings, 1974 introduced. Rates in %.
+
+| scheme | false-new (pooled) | Wilson 95% CI | cluster bootstrap 95% CI | macro (bootstrap CI) | median [IQR] |
+|---|---:|---|---|---|---|
+| `line` | 52.57 | [51.92, 53.21] | [48.51, 57.62] | 54.49 [50.96, 57.93] | 54.43 [46.63, 63.08] |
+| `line_text` | 1.89 | [1.73, 2.08] | [0.80, 3.51] | 1.87 [0.93, 3.23] | 0.57 [0.30, 1.77] |
+| `github` | 3.14 | [2.92, 3.37] | [1.96, 4.86] | 3.31 [2.21, 4.81] | 1.85 [1.35, 3.68] |
+| `codeguard` | 1.79 | [1.63, 1.97] | [0.72, 3.39] | 1.71 [0.77, 3.07] | 0.48 [0.15, 1.38] |
+| `cg_no_scope` | 1.82 | [1.66, 2.00] | [0.75, 3.40] | 1.72 [0.78, 3.07] | 0.49 [0.20, 1.35] |
+| `cg_no_mask` | 1.82 | [1.66, 2.00] | [0.74, 3.42] | 1.75 [0.81, 3.10] | 0.52 [0.20, 1.56] |
+| `cg_raw` | 1.91 | [1.74, 2.09] | [0.81, 3.52] | 1.88 [0.93, 3.23] | 0.57 [0.29, 1.77] |
+
+| scheme | false-new, moved | false-new, edited | hidden | mispair | collision |
+|---|---|---|---|---|---|
+| `line` | 52.46 [48.44, 57.49] | 69.72 [59.46, 79.49] | 1.22 [0.63, 2.16] | 2.82 [1.57, 3.93] | 2.09 [1.08, 3.51] |
+| `line_text` | 1.29 [0.24, 2.83] | 100.00 [100.00, 100.00] | 1.17 [0.52, 2.21] | 0.19 [0.05, 0.39] | 17.44 [13.99, 21.28] |
+| `github` | 2.62 [1.49, 4.29] | 87.32 [80.00, 93.97] | 0.81 [0.22, 1.87] | 0.09 [0.00, 0.22] | 2.09 [1.08, 3.51] |
+| `codeguard` | 1.35 [0.30, 2.88] | 74.65 [65.10, 83.33] | 1.87 [0.92, 3.50] | 0.34 [0.10, 0.68] | 18.56 [12.91, 24.85] |
+| `cg_no_scope` | 1.37 [0.33, 2.89] | 74.65 [65.10, 83.33] | 2.48 [1.47, 3.98] | 0.41 [0.16, 0.76] | 23.64 [18.96, 28.98] |
+| `cg_no_mask` | 1.32 [0.27, 2.86] | 83.80 [74.66, 92.42] | 1.62 [0.64, 3.30] | 0.24 [0.05, 0.51] | 15.59 [10.91, 20.58] |
+| `cg_raw` | 1.30 [0.26, 2.84] | 100.00 [100.00, 100.00] | 1.01 [0.40, 1.97] | 0.14 [0.02, 0.32] | 13.10 [8.93, 17.66] |
+
+### Security findings
+
+35 repositories, 35 of them with persisting findings: 5794 persisting findings, 648 introduced. Rates in %.
+
+| scheme | false-new (pooled) | Wilson 95% CI | cluster bootstrap 95% CI | macro (bootstrap CI) | median [IQR] |
+|---|---:|---|---|---|---|
+| `line` | 50.71 | [49.42, 51.99] | [43.08, 62.85] | 55.56 [50.34, 60.97] | 53.27 [43.41, 69.27] |
+| `line_text` | 1.86 | [1.55, 2.25] | [0.46, 4.24] | 1.58 [0.66, 2.91] | 0.18 [0.00, 1.40] |
+| `github` | 3.02 | [2.61, 3.49] | [1.46, 5.63] | 3.21 [1.82, 4.93] | 1.39 [0.17, 3.72] |
+| `codeguard` | 1.90 | [1.58, 2.28] | [0.44, 4.30] | 1.44 [0.55, 2.72] | 0.00 [0.00, 1.33] |
+| `cg_no_scope` | 1.97 | [1.64, 2.36] | [0.58, 4.25] | 1.42 [0.56, 2.71] | 0.00 [0.00, 1.33] |
+| `cg_no_mask` | 1.90 | [1.58, 2.28] | [0.44, 4.29] | 1.48 [0.55, 2.79] | 0.00 [0.00, 1.13] |
+| `cg_raw` | 1.92 | [1.59, 2.30] | [0.49, 4.30] | 1.61 [0.67, 2.94] | 0.18 [0.00, 1.21] |
+
+| scheme | false-new, moved | false-new, edited | hidden | mispair | collision |
+|---|---|---|---|---|---|
+| `line` | 50.60 [43.00, 62.72] | 76.00 [52.94, 95.83] | 0.62 [0.00, 1.65] | 3.40 [0.95, 5.38] | 2.99 [1.19, 5.51] |
+| `line_text` | 1.44 [0.13, 3.61] | 100.00 [100.00, 100.00] | 2.01 [0.31, 4.91] | 0.67 [0.11, 1.54] | 31.18 [21.75, 43.31] |
+| `github` | 2.67 [1.19, 5.15] | 84.00 [66.67, 100.00] | 1.70 [0.14, 4.47] | 0.36 [0.00, 0.95] | 2.99 [1.19, 5.51] |
+| `codeguard` | 1.63 [0.24, 3.90] | 64.00 [44.44, 80.95] | 3.40 [0.48, 8.07] | 1.09 [0.14, 2.62] | 29.55 [12.93, 49.28] |
+| `cg_no_scope` | 1.70 [0.37, 3.84] | 64.00 [44.44, 80.95] | 4.78 [1.48, 8.93] | 1.28 [0.30, 2.78] | 41.81 [28.43, 57.66] |
+| `cg_no_mask` | 1.56 [0.18, 3.81] | 80.00 [60.71, 95.83] | 2.78 [0.16, 7.31] | 0.76 [0.00, 1.92] | 22.45 [10.00, 38.44] |
+| `cg_raw` | 1.49 [0.16, 3.67] | 100.00 [100.00, 100.00] | 1.70 [0.16, 4.28] | 0.52 [0.00, 1.33] | 20.18 [8.65, 35.04] |
+
+Pooled = total numerator over total denominator. Brackets after a pooled rate are the cluster bootstrap 95% CI over repositories; macro = mean of per-repository rates; IQR over per-repository rates.
diff --git a/research/finding_identity/replay.py b/research/finding_identity/replay.py
index 3cfe047..da8cbed 100644
--- a/research/finding_identity/replay.py
+++ b/research/finding_identity/replay.py
@@ -18,9 +18,10 @@
 
 import codeguard
 
+from .categories import split_by_category
 from .gitrepo import Change, GitRepo
 from .linemap import map_lines
-from .matching import OUTCOMES, evaluate
+from .matching import OUTCOMES, Observation, evaluate
 from .scan import Scanner, is_candidate
 
 GT_KEYS = ("old", "new", "known", "known_equal", "known_edited", "introduced", "removed")
@@ -54,6 +55,7 @@ def _replay_change(
     schemes: Sequence[str],
     totals: dict[str, Any],
     records: list[dict[str, Any]] | None,
+    by_category: dict[str, dict[str, Any]] | None = None,
 ) -> None:
     old_ok, new_ok = is_candidate(ch.old_path), is_candidate(ch.new_path)
     if not (old_ok or new_ok):
@@ -87,6 +89,53 @@ def _replay_change(
         for rec in result.records:
             rec.update(path=ch.new_path, old_path=ch.old_path, status=ch.status)
             records.append(rec)
+    if by_category is not None:
+        _add_by_category(by_category, old_obs, new_obs, line_map, schemes, ch.status)
+
+
+def _add_by_category(
+    by_category: dict[str, dict[str, Any]],
+    old_obs: Sequence[Observation],
+    new_obs: Sequence[Observation],
+    line_map: dict[int, tuple[int, str]],
+    schemes: Sequence[str],
+    status: str,
+) -> None:
+    """Score each rule category's findings on their own (they add up to the totals)."""
+    old_split, new_split = split_by_category(old_obs), split_by_category(new_obs)
+    for category in sorted(old_split.keys() | new_split.keys()):
+        result = evaluate(
+            old_split.get(category, []), new_split.get(category, []), line_map, schemes
+        )
+        totals = by_category.setdefault(category, _empty_totals(schemes))
+        for k, v in result.gt.items():
+            totals["gt"][k] += v
+        for s, counts in result.by_scheme.items():
+            for k, v in counts.items():
+                totals["schemes"][s][k] += v
+        totals["files"] += 1
+        if status == "R":
+            totals["renamed_files"] += 1
+
+
+def _category_summaries(
+    by_category: dict[str, dict[str, Any]],
+    scanner: Scanner,
+    schemes: Sequence[str],
+    categories: Sequence[str],
+) -> dict[str, Any]:
+    """Per category, a ``{"totals", "collisions"}`` block shaped like the summary's."""
+    names = sorted(set(categories) | by_category.keys() | scanner.category_observations.keys())
+    return {
+        c: {
+            "totals": by_category.get(c, _empty_totals(schemes)),
+            "collisions": {
+                "observations": scanner.category_observations.get(c, 0),
+                "by_scheme": scanner.category_collisions.get(c, dict.fromkeys(schemes, 0)),
+            },
+        }
+        for c in names
+    }
 
 
 def replay(
@@ -116,6 +165,7 @@ def replay(
         "created": datetime.now(timezone.utc).isoformat(timespec="seconds"),
     }
     totals = _empty_totals(schemes)
+    category_totals: dict[str, dict[str, Any]] = {}
     started = time.monotonic()
     with (
         (out_dir / "pairs.jsonl").open("w", encoding="utf-8") as pairs_out,
@@ -125,7 +175,7 @@ def replay(
             pair_totals = _empty_totals(schemes)
             records: list[dict[str, Any]] | None = [] if details else None
             for ch in repo.changes(old, new):
-                _replay_change(repo, scanner, ch, schemes, pair_totals, records)
+                _replay_change(repo, scanner, ch, schemes, pair_totals, records, category_totals)
             _add(totals, pair_totals)
             pairs_out.write(json.dumps({"old": old, "new": new, **pair_totals}) + "\n")
             for rec in records or []:
@@ -147,6 +197,7 @@ def replay(
             "observations": scanner.observations,
             "by_scheme": scanner.collision_totals,
         },
+        "by_category": _category_summaries(category_totals, scanner, schemes, categories),
     }
     (out_dir / "summary.json").write_text(json.dumps(summary, indent=2) + "\n", encoding="utf-8")
     return summary
diff --git a/research/finding_identity/requirements.txt b/research/finding_identity/requirements.txt
new file mode 100644
index 0000000..8309d81
--- /dev/null
+++ b/research/finding_identity/requirements.txt
@@ -0,0 +1,3 @@
+# The harness needs CodeGuard itself: pip install -e . from the repository root.
+# Optional: the per-repository box plot (python -m research.finding_identity stats --plot).
+matplotlib>=3.8
diff --git a/research/finding_identity/scan.py b/research/finding_identity/scan.py
index 8733cf1..1f5cf38 100644
--- a/research/finding_identity/scan.py
+++ b/research/finding_identity/scan.py
@@ -12,6 +12,7 @@
 from codeguard.lang.base import Language
 from codeguard.lang.registry import language_for_path
 
+from .categories import split_by_category
 from .matching import Observation, collisions
 from .schemes import FileContext, keys_for
 
@@ -51,6 +52,9 @@ def __init__(self, rule_ids: list[str], schemes: Sequence[str]) -> None:
         self.parse_failures = 0
         self.observations = 0
         self.collision_totals = dict.fromkeys(self._schemes, 0)
+        #: The same counts split by rule category (see :mod:`categories`).
+        self.category_observations: dict[str, int] = {}
+        self.category_collisions: dict[str, dict[str, int]] = {}
 
     def scan(self, cache_key: str, path: str, data: bytes) -> ScanResult | None:
         """Findings for *path* with contents *data*; ``None`` if it cannot be analysed."""
@@ -64,8 +68,18 @@ def scan(self, cache_key: str, path: str, data: bytes) -> ScanResult | None:
             self.observations += len(result.observations)
             for scheme, n in result.collisions.items():
                 self.collision_totals[scheme] += n
+            self._count_categories(result.observations)
         return result
 
+    def _count_categories(self, observations: Sequence[Observation]) -> None:
+        for category, obs in split_by_category(observations).items():
+            seen = self.category_observations
+            seen[category] = seen.get(category, 0) + len(obs)
+            zeros = dict.fromkeys(self._schemes, 0)
+            totals = self.category_collisions.setdefault(category, zeros)
+            for scheme, n in collisions(obs, self._schemes).items():
+                totals[scheme] += n
+
     def _scan(self, path: str, data: bytes) -> ScanResult | None:
         lang = language_for_path(path)
         if lang is None or len(data) > MAX_BYTES:
diff --git a/research/finding_identity/stats.py b/research/finding_identity/stats.py
new file mode 100644
index 0000000..9382d19
--- /dev/null
+++ b/research/finding_identity/stats.py
@@ -0,0 +1,502 @@
+"""Statistics over many replays: confidence intervals, per-repository spread, CSV tables.
+
+For every scope (all findings, and each requested rule category such as ``security``),
+scheme and metric this reports:
+
+- the **pooled** (micro) rate, sum of numerators over sum of denominators, with a
+  **Wilson** 95% interval. Wilson treats findings as independent, which they are not
+  (findings in one repository are correlated), so it is too narrow for the corpus;
+- a **cluster bootstrap** 95% interval: repositories are resampled with replacement and
+  the pooled rate recomputed, which respects the correlation within a repository;
+- the **macro** rate, the mean of the per-repository rates, with its own cluster
+  bootstrap interval;
+- the **median** and **interquartile range** of the per-repository rates.
+
+Repositories whose denominator is zero have no rate: they count towards the pooled sums
+(adding nothing) but not towards the macro rate, median or quartiles.
+
+Metrics (numerator / denominator):
+
+- ``false_new``         false_new / known            persisting findings reported as new
+- ``false_new_moved``   false_new_equal / known_equal   ...whose line was unchanged
+- ``false_new_edited``  false_new_edited / known_edited ...whose line was edited
+- ``hidden``            false_known / introduced     new findings the scheme hides
+- ``mispair``           mispaired / known            persisting findings tied to the wrong one
+- ``collision``         colliding / observations     findings sharing a key in a file version
+"""
+
+from __future__ import annotations
+
+import csv
+import json
+import math
+import random
+import sys
+from collections.abc import Iterable, Sequence
+from dataclasses import dataclass
+from pathlib import Path
+from typing import Any
+
+Z95 = 1.959963984540054
+
+METRICS: dict[str, tuple[str, str]] = {
+    "false_new": ("false_new", "known"),
+    "false_new_moved": ("false_new_equal", "known_equal"),
+    "false_new_edited": ("false_new_edited", "known_edited"),
+    "hidden": ("false_known", "introduced"),
+    "mispair": ("mispaired", "known"),
+    "collision": ("collisions", "observations"),
+}
+
+ALL = "all"
+
+
+# ---------------------------------------------------------------------------
+# Elementary statistics
+# ---------------------------------------------------------------------------
+
+
+def wilson(k: int, n: int, z: float = Z95) -> tuple[float, float] | None:
+    """Wilson score interval for *k* successes in *n* trials (``None`` if ``n == 0``)."""
+    if n <= 0:
+        return None
+    p = k / n
+    z2 = z * z
+    denom = 1 + z2 / n
+    centre = (p + z2 / (2 * n)) / denom
+    half = z * math.sqrt(p * (1 - p) / n + z2 / (4 * n * n)) / denom
+    return max(0.0, centre - half), min(1.0, centre + half)
+
+
+def quantile(values: Sequence[float], q: float) -> float:
+    """The *q* quantile with linear interpolation (Hyndman and Fan type 7, numpy's default)."""
+    if not values:
+        raise ValueError("quantile of an empty sequence")
+    xs = sorted(values)
+    pos = (len(xs) - 1) * q
+    lo = math.floor(pos)
+    hi = min(lo + 1, len(xs) - 1)
+    return xs[lo] + (xs[hi] - xs[lo]) * (pos - lo)
+
+
+def ratio(num: int, den: int) -> float | None:
+    return num / den if den else None
+
+
+def pooled_rate(pairs: Iterable[tuple[int, int]]) -> float | None:
+    """Micro average: total numerator over total denominator."""
+    nums, dens = 0, 0
+    for n, d in pairs:
+        nums += n
+        dens += d
+    return ratio(nums, dens)
+
+
+def macro_rate(pairs: Iterable[tuple[int, int]]) -> float | None:
+    """Mean of the per-repository rates, over repositories with a non-zero denominator."""
+    rates = [n / d for n, d in pairs if d]
+    return sum(rates) / len(rates) if rates else None
+
+
+def bootstrap_draws(n_clusters: int, n_resamples: int, seed: int) -> list[list[int]]:
+    """Index lists for a cluster bootstrap; shared by every table so draws are paired."""
+    rng = random.Random(seed)  # noqa: S311  (reproducible resampling, not security)
+    return [[rng.randrange(n_clusters) for _ in range(n_clusters)] for _ in range(n_resamples)]
+
+
+def cluster_bootstrap(
+    pairs: Sequence[tuple[int, int]],
+    draws: Sequence[Sequence[int]],
+    *,
+    level: float = 0.95,
+) -> dict[str, tuple[float, float] | None]:
+    """Percentile intervals of the pooled and macro rates over resampled repositories.
+
+    Resamples in which the statistic is undefined (no denominator) are dropped.
+    """
+    pooled: list[float] = []
+    macro: list[float] = []
+    for draw in draws:
+        chosen = [pairs[i] for i in draw]
+        p = pooled_rate(chosen)
+        if p is not None:
+            pooled.append(p)
+        m = macro_rate(chosen)
+        if m is not None:
+            macro.append(m)
+    tail = (1 - level) / 2
+
+    def interval(xs: list[float]) -> tuple[float, float] | None:
+        return (quantile(xs, tail), quantile(xs, 1 - tail)) if xs else None
+
+    return {"pooled": interval(pooled), "macro": interval(macro)}
+
+
+# ---------------------------------------------------------------------------
+# Reading summaries
+# ---------------------------------------------------------------------------
+
+
+def load_summaries(
+    paths: Sequence[Path], labels: Sequence[str] | None = None
+) -> list[dict[str, Any]]:
+    """Summaries from result directories, or from directories of result directories.
+
+    With *labels*, keep only those repositories, in that order.
+    """
+    found: dict[str, dict[str, Any]] = {}
+    for path in paths:
+        candidates = [path] if (path / "summary.json").exists() else sorted(path.iterdir())
+        for d in candidates:
+            f = d / "summary.json"
+            if d.is_dir() and not d.name.startswith("_") and f.exists():
+                s = json.loads(f.read_text(encoding="utf-8"))
+                found[s.get("label") or d.name] = s
+    if labels is None:
+        return list(found.values())
+    missing = [x for x in labels if x not in found]
+    if missing:
+        print(f"no results for: {', '.join(missing)}", file=sys.stderr)
+    return [found[x] for x in labels if x in found]
+
+
+def scope_block(summary: dict[str, Any], scope: str) -> dict[str, Any] | None:
+    """The ``{"totals", "collisions"}`` block of *scope*, or ``None`` if not recorded."""
+    if scope == ALL:
+        return summary
+    block: dict[str, Any] | None = summary.get("by_category", {}).get(scope)
+    return block
+
+
+def counts(block: dict[str, Any], scheme: str, metric: str) -> tuple[int, int]:
+    """``(numerator, denominator)`` of *metric* for *scheme* in a summary block."""
+    num_key, den_key = METRICS[metric]
+    if metric == "collision":
+        coll = block["collisions"]
+        return int(coll["by_scheme"][scheme]), int(coll["observations"])
+    totals = block["totals"]
+    return int(totals["schemes"][scheme][num_key]), int(totals["gt"][den_key])
+
+
+# ---------------------------------------------------------------------------
+# Tables
+# ---------------------------------------------------------------------------
+
+
+@dataclass
+class Tables:
+    pooled: list[dict[str, Any]]
+    per_repo: list[dict[str, Any]]
+    repos: list[dict[str, Any]]
+
+
+def build_tables(
+    summaries: Sequence[dict[str, Any]],
+    *,
+    scopes: Sequence[str] = (ALL, "security"),
+    resamples: int = 10_000,
+    seed: int = 20261014,
+) -> Tables:
+    schemes = list(summaries[0]["totals"]["schemes"]) if summaries else []
+    draws = bootstrap_draws(len(summaries), resamples, seed) if summaries else []
+    pooled_rows: list[dict[str, Any]] = []
+    per_repo_rows: list[dict[str, Any]] = []
+    for scope in scopes:
+        blocks = [scope_block(s, scope) for s in summaries]
+        missing = [s["label"] for s, b in zip(summaries, blocks, strict=True) if b is None]
+        if missing:
+            print(
+                f"scope {scope!r} not recorded for {', '.join(missing)}; skipping it",
+                file=sys.stderr,
+            )
+            continue
+        for scheme in schemes:
+            for metric in METRICS:
+                pairs = [counts(b, scheme, metric) for b in blocks if b is not None]
+                for s, (num, den) in zip(summaries, pairs, strict=True):
+                    per_repo_rows.append(
+                        {
+                            "scope": scope,
+                            "label": s["label"],
+                            "scheme": scheme,
+                            "metric": metric,
+                            "num": num,
+                            "den": den,
+                            "rate": ratio(num, den),
+                        }
+                    )
+                pooled_rows.append(_pooled_row(scope, scheme, metric, pairs, draws))
+    return Tables(pooled_rows, per_repo_rows, _repo_rows(summaries, scopes))
+
+
+def _pooled_row(
+    scope: str,
+    scheme: str,
+    metric: str,
+    pairs: Sequence[tuple[int, int]],
+    draws: Sequence[Sequence[int]],
+) -> dict[str, Any]:
+    num = sum(n for n, _ in pairs)
+    den = sum(d for _, d in pairs)
+    rates = [n / d for n, d in pairs if d]
+    ci = wilson(num, den)
+    boot = cluster_bootstrap(pairs, draws)
+    return {
+        "scope": scope,
+        "scheme": scheme,
+        "metric": metric,
+        "repos": len(pairs),
+        "repos_with_rate": len(rates),
+        "num": num,
+        "den": den,
+        "pooled": ratio(num, den),
+        "wilson_lo": ci[0] if ci else None,
+        "wilson_hi": ci[1] if ci else None,
+        "boot_lo": boot["pooled"][0] if boot["pooled"] else None,
+        "boot_hi": boot["pooled"][1] if boot["pooled"] else None,
+        "macro": macro_rate(pairs),
+        "macro_boot_lo": boot["macro"][0] if boot["macro"] else None,
+        "macro_boot_hi": boot["macro"][1] if boot["macro"] else None,
+        "median": quantile(rates, 0.5) if rates else None,
+        "q1": quantile(rates, 0.25) if rates else None,
+        "q3": quantile(rates, 0.75) if rates else None,
+    }
+
+
+def _repo_rows(summaries: Sequence[dict[str, Any]], scopes: Sequence[str]) -> list[dict[str, Any]]:
+    rows = []
+    for s in summaries:
+        row: dict[str, Any] = {
+            "label": s["label"],
+            "head": s.get("head", ""),
+            "commit_pairs": s.get("commit_pairs", 0),
+            "versions_scanned": s.get("versions_scanned", 0),
+            "elapsed_seconds": s.get("elapsed_seconds", 0),
+        }
+        for scope in scopes:
+            block = scope_block(s, scope)
+            if block is None:
+                continue
+            gt = block["totals"]["gt"]
+            row[f"{scope}_observations"] = block["collisions"]["observations"]
+            row[f"{scope}_known"] = gt["known"]
+            row[f"{scope}_introduced"] = gt["introduced"]
+        rows.append(row)
+    return rows
+
+
+def write_csv(path: Path, rows: Sequence[dict[str, Any]]) -> None:
+    columns: list[str] = []
+    for row in rows:
+        columns += [k for k in row if k not in columns]
+    with path.open("w", newline="", encoding="utf-8") as fh:
+        writer = csv.DictWriter(fh, fieldnames=columns, lineterminator="\n")
+        writer.writeheader()
+        for row in rows:
+            writer.writerow({k: _csv_value(row.get(k)) for k in columns})
+
+
+def _csv_value(x: object) -> object:
+    if x is None:
+        return ""
+    if isinstance(x, float):
+        return f"{x:.6f}"
+    return x
+
+
+# ---------------------------------------------------------------------------
+# Text output
+# ---------------------------------------------------------------------------
+
+
+def _pct(x: float | None) -> str:
+    return "n/a" if x is None else f"{100 * x:.2f}"
+
+
+def _ci(lo: float | None, hi: float | None) -> str:
+    return "" if lo is None or hi is None else f"[{100 * lo:.2f}, {100 * hi:.2f}]"
+
+
+SCOPE_TITLES = {ALL: "All findings"}
+
+
+def markdown_tables(tables: Tables) -> str:
+    """The pooled tables as Markdown: per scope, false-new in detail, then the rest."""
+    out: list[str] = []
+    scopes = list(dict.fromkeys(r["scope"] for r in tables.pooled))
+    for scope in scopes:
+        rows = [r for r in tables.pooled if r["scope"] == scope]
+        by = {(r["scheme"], r["metric"]): r for r in rows}
+        schemes = list(dict.fromkeys(r["scheme"] for r in rows))
+        title = SCOPE_TITLES.get(scope, f"{scope.capitalize()} findings")
+        out.append(f"### {title}\n")
+        if schemes:
+            fn, hd = by[(schemes[0], "false_new")], by[(schemes[0], "hidden")]
+            out.append(
+                f"{fn['repos']} repositories, {fn['repos_with_rate']} of them with persisting "
+                f"findings: {fn['den']} persisting findings, {hd['den']} introduced. "
+                "Rates in %.\n"
+            )
+        out.append(
+            "| scheme | false-new (pooled) | Wilson 95% CI | cluster bootstrap 95% CI "
+            "| macro (bootstrap CI) | median [IQR] |"
+        )
+        out.append("|---|---:|---|---|---|---|")
+        for scheme in schemes:
+            f = by[(scheme, "false_new")]
+            out.append(
+                f"| `{scheme}` | {_pct(f['pooled'])} | {_ci(f['wilson_lo'], f['wilson_hi'])} "
+                f"| {_ci(f['boot_lo'], f['boot_hi'])} "
+                f"| {_pct(f['macro'])} {_ci(f['macro_boot_lo'], f['macro_boot_hi'])} "
+                f"| {_pct(f['median'])} [{_pct(f['q1'])}, {_pct(f['q3'])}] |"
+            )
+        out.append("")
+        others = ("false_new_moved", "false_new_edited", "hidden", "mispair", "collision")
+        out.append(
+            "| scheme | false-new, moved | false-new, edited | hidden | mispair | collision |"
+        )
+        out.append("|---|---|---|---|---|---|")
+        for scheme in schemes:
+            cells = [
+                f"{_pct(x['pooled'])} {_ci(x['boot_lo'], x['boot_hi'])}"
+                for x in (by[(scheme, m)] for m in others)
+            ]
+            out.append(f"| `{scheme}` | " + " | ".join(cells) + " |")
+        out.append("")
+    out.append(
+        "Pooled = total numerator over total denominator. Brackets after a pooled rate are "
+        "the cluster bootstrap 95% CI over repositories; macro = mean of per-repository "
+        "rates; IQR over per-repository rates.\n"
+    )
+    return "\n".join(out)
+
+
+def per_repo_markdown(tables: Tables, metric: str = "false_new") -> str:
+    """Per scope, one row per repository: denominator and *metric* rate of every scheme."""
+    out: list[str] = []
+    scopes = list(dict.fromkeys(r["scope"] for r in tables.per_repo))
+    for scope in scopes:
+        rows = [r for r in tables.per_repo if r["scope"] == scope and r["metric"] == metric]
+        schemes = list(dict.fromkeys(r["scheme"] for r in rows))
+        labels = list(dict.fromkeys(r["label"] for r in rows))
+        by = {(r["label"], r["scheme"]): r for r in rows}
+        title = SCOPE_TITLES.get(scope, f"{scope.capitalize()} findings")
+        den = METRICS[metric][1]
+        out.append(f"### {title}: {metric.replace('_', '-')} rate per repository (%)\n")
+        out.append(f"| repository | {den} | " + " | ".join(f"`{s}`" for s in schemes) + " |")
+        out.append("|---|---:|" + "---:|" * len(schemes))
+        for label in labels:
+            first = by[(label, schemes[0])]
+            cells = [_pct(by[(label, s)]["rate"]) for s in schemes]
+            out.append(f"| {label} | {first['den']} | " + " | ".join(cells) + " |")
+        out.append("")
+    return "\n".join(out)
+
+
+# ---------------------------------------------------------------------------
+# Box plot (optional dependency)
+# ---------------------------------------------------------------------------
+
+_INK = "#0b0b0b"
+_INK_SECONDARY = "#52514e"
+_GRID = "#e4e3df"
+_SERIES = "#2a78d6"
+
+
+def box_plot(tables: Tables, path: Path, metric: str = "false_new") -> bool:
+    """Per-repository *metric* rates per scheme, one panel per scope. False without matplotlib."""
+    try:
+        import matplotlib
+
+        matplotlib.use("Agg")
+        import matplotlib.pyplot as plt
+    except ImportError:
+        print("matplotlib is not installed; skipping the box plot", file=sys.stderr)
+        return False
+    scopes = list(dict.fromkeys(r["scope"] for r in tables.per_repo))
+    schemes = list(dict.fromkeys(r["scheme"] for r in tables.per_repo))
+    fig, axes = plt.subplots(
+        1, len(scopes), figsize=(4.2 * len(scopes), 3.6), sharey=True, squeeze=False
+    )
+    rng = random.Random(0)  # noqa: S311  (jitter for plotted points)
+    for ax, scope in zip(axes[0], scopes, strict=True):
+        data = []
+        for scheme in schemes:
+            data.append(
+                [
+                    100 * r["rate"]
+                    for r in tables.per_repo
+                    if r["scope"] == scope
+                    and r["scheme"] == scheme
+                    and r["metric"] == metric
+                    and r["rate"] is not None
+                ]
+            )
+        positions = range(1, len(schemes) + 1)
+        ax.boxplot(
+            data,
+            positions=list(positions),
+            widths=0.5,
+            showfliers=False,
+            medianprops={"color": _SERIES, "linewidth": 2},
+            boxprops={"color": _INK_SECONDARY, "linewidth": 1},
+            whiskerprops={"color": _INK_SECONDARY, "linewidth": 1},
+            capprops={"color": _INK_SECONDARY, "linewidth": 1},
+        )
+        for x, values in zip(positions, data, strict=True):
+            xs = [x + rng.uniform(-0.15, 0.15) for _ in values]
+            ax.scatter(xs, values, s=10, color=_SERIES, alpha=0.6, linewidths=0, zorder=3)
+        n = max((len(v) for v in data), default=0)
+        title = SCOPE_TITLES.get(scope, f"{scope.capitalize()} findings")
+        ax.set_title(f"{title} ({n} repositories)", color=_INK, fontsize=10, loc="left")
+        ax.set_xticks(list(positions), schemes, rotation=30, ha="right", fontsize=8)
+        ax.tick_params(colors=_INK_SECONDARY, labelsize=8)
+        # Most schemes lose a few percent and `line` loses half: a symmetric log scale
+        # (linear below 1%) keeps both readable.
+        ax.set_yscale("symlog", linthresh=1, linscale=0.5)
+        ticks = [0, 0.5, 1, 2, 5, 10, 20, 50, 100]
+        ax.set_yticks(ticks, [f"{t:g}" for t in ticks])
+        ax.set_ylim(-0.1, 100)
+        ax.grid(axis="y", color=_GRID, linewidth=0.8)
+        ax.set_axisbelow(True)
+        for side in ("top", "right"):
+            ax.spines[side].set_visible(False)
+        for side in ("left", "bottom"):
+            ax.spines[side].set_color(_GRID)
+    axes[0][0].set_ylabel(f"{metric.replace('_', '-')} rate per repository (%, symlog)", color=_INK)
+    fig.tight_layout()
+    fig.savefig(path, dpi=200)
+    plt.close(fig)
+    return True
+
+
+# ---------------------------------------------------------------------------
+# Entry point
+# ---------------------------------------------------------------------------
+
+
+def run_stats(
+    paths: Sequence[Path],
+    out_dir: Path,
+    *,
+    labels: Sequence[str] | None = None,
+    scopes: Sequence[str] = (ALL, "security"),
+    resamples: int = 10_000,
+    seed: int = 20261014,
+    plot: bool = False,
+) -> Tables:
+    summaries = load_summaries(paths, labels)
+    if not summaries:
+        raise SystemExit("no summary.json found")
+    tables = build_tables(summaries, scopes=scopes, resamples=resamples, seed=seed)
+    out_dir.mkdir(parents=True, exist_ok=True)
+    write_csv(out_dir / "pooled.csv", tables.pooled)
+    write_csv(out_dir / "per_repo.csv", tables.per_repo)
+    write_csv(out_dir / "repos.csv", tables.repos)
+    md = markdown_tables(tables)
+    (out_dir / "tables.md").write_text(md, encoding="utf-8")
+    (out_dir / "per_repo.md").write_text(per_repo_markdown(tables), encoding="utf-8")
+    print(md)
+    if plot:
+        box_plot(tables, out_dir / "false_new_by_repo.png")
+    return tables
diff --git a/research/finding_identity/tests/test_batch.py b/research/finding_identity/tests/test_batch.py
new file mode 100644
index 0000000..0f0b05a
--- /dev/null
+++ b/research/finding_identity/tests/test_batch.py
@@ -0,0 +1,197 @@
+"""The batch runner: resume logic, failure isolation, and one real end-to-end run."""
+
+import json
+import os
+import subprocess
+from pathlib import Path
+
+import pytest
+
+from research.finding_identity.batch import BatchOptions, is_done, run_batch
+from research.finding_identity.corpus import (
+    CorpusEntry,
+    classify_license,
+    count_source_files,
+    load_corpus,
+    save_corpus,
+)
+
+SHA_A = "a" * 40
+SHA_B = "b" * 40
+
+
+def _entry(label: str, sha: str, url: str = "https://example.invalid/x") -> CorpusEntry:
+    return CorpusEntry(
+        label=label,
+        url=url,
+        branch="main",
+        sha=sha,
+        pinned="2026-10-14",
+        language="python",
+        framework="Flask",
+        license="MIT",
+        rationale="test",
+    )
+
+
+def _write_summary(opts: BatchOptions, label: str, head: str, pairs: int) -> None:
+    d = opts.out / label
+    d.mkdir(parents=True, exist_ok=True)
+    (d / "summary.json").write_text(json.dumps({"head": head, "commit_pairs": pairs}))
+
+
+def test_is_done_requires_matching_sha_and_enough_pairs(tmp_path: Path) -> None:
+    opts = BatchOptions(commits=200, out=tmp_path, workdir=tmp_path / "repos")
+    entry = _entry("x", SHA_A)
+    assert not is_done(entry, opts)
+    _write_summary(opts, "x", SHA_A, 200)
+    assert is_done(entry, opts)
+    _write_summary(opts, "x", SHA_B, 200)  # pinned SHA changed since that run
+    assert not is_done(entry, opts)
+    _write_summary(opts, "x", SHA_A, 50)  # an earlier, shorter run
+    assert not is_done(entry, opts)
+    (opts.out / "x" / "summary.json").write_text("{not json")
+    assert not is_done(entry, opts)
+
+
+def test_resume_skips_done_and_survives_failures(tmp_path: Path) -> None:
+    opts = BatchOptions(commits=10, out=tmp_path / "out", workdir=tmp_path / "repos")
+    entries = [_entry("done", SHA_A), _entry("stale", SHA_A), _entry("new", SHA_A)]
+    entries.append(_entry("broken", SHA_A))
+    _write_summary(opts, "done", SHA_A, 10)
+    _write_summary(opts, "stale", SHA_B, 10)
+    calls: list[str] = []
+
+    def fake_runner(entry: CorpusEntry, o: BatchOptions) -> None:
+        calls.append(entry.label)
+        if entry.label == "broken":
+            raise RuntimeError("clone failed")
+        _write_summary(o, entry.label, entry.sha, o.commits)
+
+    statuses = run_batch(entries, opts, jobs=2, runner=fake_runner)
+    assert sorted(calls) == ["broken", "new", "stale"]
+    assert [(s["label"], s["status"]) for s in statuses] == [
+        ("done", "skipped"),
+        ("stale", "ok"),
+        ("new", "ok"),
+        ("broken", "failed"),
+    ]
+    broken = statuses[3]
+    assert "clone failed" in broken["error"]
+    assert "RuntimeError" in (opts.out / "_logs" / "broken.log").read_text()
+    journal = [json.loads(x) for x in (opts.out / "batch.jsonl").read_text().splitlines()]
+    assert sorted(j["label"] for j in journal) == ["broken", "new", "stale"]
+
+    # Second run: only the failed repository is retried.
+    calls.clear()
+    run_batch(entries, opts, jobs=2, runner=fake_runner)
+    assert calls == ["broken"]
+
+    # --force reruns everything.
+    calls.clear()
+    run_batch(entries, opts, jobs=1, force=True, runner=fake_runner)
+    assert sorted(calls) == ["broken", "done", "new", "stale"]
+
+
+ENV = {
+    **os.environ,
+    "GIT_AUTHOR_NAME": "t",
+    "GIT_AUTHOR_EMAIL": "t@example.com",
+    "GIT_COMMITTER_NAME": "t",
+    "GIT_COMMITTER_EMAIL": "t@example.com",
+}
+
+
+def _git(repo: Path, *args: str) -> str:
+    return subprocess.run(
+        ["git", "-C", str(repo), *args], check=True, env=ENV, capture_output=True, text=True
+    ).stdout
+
+
+def test_run_one_end_to_end(tmp_path: Path) -> None:
+    upstream = tmp_path / "upstream"
+    upstream.mkdir()
+    _git(upstream, "init", "-q")
+    versions = [
+        "def handler(expr):\n    return eval(expr)\n",
+        "import os\n\n\ndef handler(expr):\n    return eval(expr)\n",
+        "import os\n\n\ndef run(expr):\n    return eval(expr)\n",
+    ]
+    for i, text in enumerate(versions):
+        (upstream / "app.py").write_text(text)
+        _git(upstream, "add", "app.py")
+        _git(upstream, "commit", "-q", "-m", f"v{i}")
+    head = _git(upstream, "rev-parse", "HEAD").strip()
+    # A commit after the pinned one must not be replayed.
+    (upstream / "app.py").write_text("x = 1\n")
+    _git(upstream, "commit", "-qam", "later")
+
+    opts = BatchOptions(
+        commits=2,
+        out=tmp_path / "out",
+        workdir=tmp_path / "repos",
+        categories="security",
+        delete_clones=True,
+    )
+    entry = _entry("tiny", head, url=upstream.as_uri())
+    statuses = run_batch([entry], opts)
+    assert statuses[0]["status"] == "ok", (opts.out / "_logs" / "tiny.log").read_text()
+    summary = json.loads((opts.out / "tiny" / "summary.json").read_text())
+    assert summary["head"] == head and summary["commit_pairs"] == 2
+    sec = summary["by_category"]["security"]["totals"]
+    assert sec["gt"]["known"] == 2
+    assert sec["schemes"]["line"]["false_new"] == 1
+    assert not (opts.workdir / "tiny").exists()
+    assert run_batch([entry], opts)[0]["status"] == "skipped"
+
+
+# ---------------------------------------------------------------------------
+# Corpus helpers
+# ---------------------------------------------------------------------------
+
+
+@pytest.mark.parametrize(
+    ("text", "spdx"),
+    [
+        ("MIT License\n\nPermission is hereby granted, free of charge, to any person", "MIT"),
+        ("Apache License\n  Version 2.0, January 2004", "Apache-2.0"),
+        ("GNU AFFERO GENERAL PUBLIC LICENSE\n Version 3, 19 November 2007", "AGPL-3.0"),
+        ("GNU GENERAL PUBLIC LICENSE\n Version 3, 29 June 2007", "GPL-3.0"),
+        (
+            "GNU GENERAL PUBLIC LICENSE\n Version 3\n"
+            + "x " * 400
+            + "GNU Affero General Public License",
+            "GPL-3.0",
+        ),
+        ("GNU GENERAL PUBLIC LICENSE\n Version 2, June 1991", "GPL-2.0"),
+        (
+            "Redistribution and use in source and binary forms ... Neither the name of",
+            "BSD-3-Clause",
+        ),
+        ("Redistribution and use in source and binary forms, with or without", "BSD-2-Clause"),
+        ("This program is under the GNU General Public License, v. 3.0.", "GPL-3.0"),
+        (
+            "Portions of this software are licensed as follows: ee/ ... Permission is "
+            "hereby granted, free of charge",
+            "mixed (MIT)",
+        ),
+        ("Business Source License 1.1", "non-osi (business source license)"),
+        ("All rights reserved.", "unknown"),
+    ],
+)
+def test_classify_license(text: str, spdx: str) -> None:
+    assert classify_license(text) == spdx
+
+
+def test_count_source_files_skips_vendored_code() -> None:
+    paths = ["app/views.py", "web/src/a.ts", "web/node_modules/x/index.js", "static/a.min.js"]
+    assert count_source_files([*paths, "README.md"]) == (1, 1)
+
+
+def test_corpus_round_trip(tmp_path: Path) -> None:
+    path = tmp_path / "corpus.csv"
+    save_corpus(path, [_entry("a", SHA_A), _entry("b", SHA_B)])
+    assert [e.sha for e in load_corpus(path)] == [SHA_A, SHA_B]
+    save_corpus(path, [_entry("a", SHA_A), _entry("a", SHA_B)])
+    with pytest.raises(ValueError, match="duplicate"):
+        load_corpus(path)
diff --git a/research/finding_identity/tests/test_categories.py b/research/finding_identity/tests/test_categories.py
new file mode 100644
index 0000000..98bbd79
--- /dev/null
+++ b/research/finding_identity/tests/test_categories.py
@@ -0,0 +1,74 @@
+"""Per-category totals: each category is scored on its own and they add up."""
+
+import json
+from pathlib import Path
+
+from research.finding_identity.categories import UNKNOWN, category_of, split_by_category
+from research.finding_identity.gitrepo import GitRepo
+from research.finding_identity.matching import Observation
+from research.finding_identity.replay import replay
+from research.finding_identity.scan import Scanner
+from research.finding_identity.schemes import ALL_SCHEMES
+from research.finding_identity.tests.test_replay import _commit, _git
+
+V1 = "def handler(expr):\n    try:\n        return eval(expr)\n    except:\n        pass\n"
+# Lines inserted above both findings.
+V2 = "import os\n\n\n" + V1
+# eval() line edited; the bare except is untouched.
+V3 = V2.replace("eval(expr)", "eval(expr.strip())")
+
+
+def test_category_of() -> None:
+    assert category_of("CG-SEC-003") == "security"
+    assert category_of("CG-QUAL-002") == "quality"
+    assert category_of("NOT-A-RULE") == UNKNOWN
+    obs = [Observation("CG-SEC-003", 1, 0, {}), Observation("CG-QUAL-002", 2, 0, {})]
+    assert {k: len(v) for k, v in split_by_category(obs).items()} == {
+        "security": 1,
+        "quality": 1,
+    }
+
+
+def test_replay_records_categories_that_add_up(tmp_path: Path) -> None:
+    repo_dir = tmp_path / "repo"
+    repo_dir.mkdir()
+    _git(repo_dir, "init", "-q")
+    for text, msg in ((V1, "v1"), (V2, "v2"), (V3, "v3")):
+        _commit(repo_dir, text, msg)
+
+    repo = GitRepo(repo_dir)
+    try:
+        summary = replay(
+            repo,
+            ref="HEAD",
+            commits=2,
+            scanner=Scanner(["CG-SEC-003", "CG-QUAL-002"], ALL_SCHEMES),
+            schemes=ALL_SCHEMES,
+            out_dir=tmp_path / "out",
+            label="tiny",
+            categories=["security", "quality", "performance"],
+        )
+    finally:
+        repo.close()
+
+    by_cat = summary["by_category"]
+    assert set(by_cat) == {"security", "quality", "performance"}
+    assert by_cat["performance"]["totals"]["gt"]["new"] == 0
+    sec, qual = by_cat["security"], by_cat["quality"]
+    assert sec["totals"]["gt"]["known"] == 2 and qual["totals"]["gt"]["known"] == 2
+    assert sec["totals"]["gt"]["known_edited"] == 1 and qual["totals"]["gt"]["known_edited"] == 0
+    # line_text loses the edited eval() line, a security finding only.
+    assert sec["totals"]["schemes"]["line_text"]["false_new"] == 1
+    assert qual["totals"]["schemes"]["line_text"]["false_new"] == 0
+
+    total = summary["totals"]
+    for key, value in total["gt"].items():
+        assert value == sum(c["totals"]["gt"][key] for c in by_cat.values())
+    for scheme, outcome_counts in total["schemes"].items():
+        for key, value in outcome_counts.items():
+            assert value == sum(c["totals"]["schemes"][scheme][key] for c in by_cat.values())
+    assert summary["collisions"]["observations"] == sum(
+        c["collisions"]["observations"] for c in by_cat.values()
+    )
+    on_disk = json.loads((tmp_path / "out" / "summary.json").read_text())
+    assert on_disk["by_category"] == by_cat
diff --git a/research/finding_identity/tests/test_stats.py b/research/finding_identity/tests/test_stats.py
new file mode 100644
index 0000000..84cc45d
--- /dev/null
+++ b/research/finding_identity/tests/test_stats.py
@@ -0,0 +1,247 @@
+"""Statistics checked against hand-computed values."""
+
+import csv
+import json
+import math
+from pathlib import Path
+from typing import Any
+
+import pytest
+
+from research.finding_identity.stats import (
+    ALL,
+    bootstrap_draws,
+    build_tables,
+    cluster_bootstrap,
+    counts,
+    load_summaries,
+    macro_rate,
+    pooled_rate,
+    quantile,
+    run_stats,
+    scope_block,
+    wilson,
+)
+
+
+def test_wilson_half() -> None:
+    # p = 0.5, n = 10: centre 0.5, half-width z*sqrt(0.025 + z^2/400)/(1 + z^2/10).
+    lo, hi = wilson(5, 10) or (0.0, 0.0)
+    assert lo == pytest.approx(0.236593, abs=1e-6)
+    assert hi == pytest.approx(0.763407, abs=1e-6)
+
+
+def test_wilson_zero_successes() -> None:
+    # k = 0: the interval is [0, z^2 / (n + z^2)].
+    lo, hi = wilson(0, 10) or (1.0, 1.0)
+    z2 = 1.959963984540054**2
+    assert lo == 0.0
+    assert hi == pytest.approx(z2 / (10 + z2))
+
+
+def test_wilson_all_successes_and_empty() -> None:
+    # k = n: the interval is [n / (n + z^2), 1].
+    lo, hi = wilson(20, 20) or (0.0, 0.0)
+    assert hi == 1.0 and lo == pytest.approx(20 / (20 + 1.959963984540054**2))
+    assert wilson(0, 0) is None
+
+
+def test_quantile_type7() -> None:
+    xs = [4.0, 1.0, 3.0, 2.0]
+    assert quantile(xs, 0.5) == 2.5
+    assert quantile(xs, 0.25) == 1.75
+    assert quantile(xs, 0.75) == 3.25
+    assert quantile([7.0], 0.9) == 7.0
+    with pytest.raises(ValueError):
+        quantile([], 0.5)
+
+
+def test_pooled_versus_macro() -> None:
+    # Repository A: 1 of 4 (25%); B: 3 of 6 (50%); C has no denominator.
+    pairs = [(1, 4), (3, 6), (0, 0)]
+    assert pooled_rate(pairs) == pytest.approx(0.4)  # 4 / 10
+    assert macro_rate(pairs) == pytest.approx(0.375)  # (0.25 + 0.5) / 2
+    assert pooled_rate([(0, 0)]) is None
+    assert macro_rate([(0, 0)]) is None
+
+
+def test_cluster_bootstrap_with_fixed_draws() -> None:
+    pairs = [(1, 4), (3, 6)]
+    # Resamples: {A, A} -> 0.25; {B, B} -> 0.5; {A, B} -> pooled 0.4, macro 0.375.
+    draws = [[0, 0], [1, 1], [0, 1]]
+    result = cluster_bootstrap(pairs, draws)
+    # Sorted pooled values [0.25, 0.4, 0.5]; type-7 positions 0.05 and 1.95.
+    pooled = result["pooled"]
+    assert pooled is not None
+    assert pooled[0] == pytest.approx(0.25 + 0.05 * 0.15)
+    assert pooled[1] == pytest.approx(0.4 + 0.95 * 0.1)
+    macro = result["macro"]
+    assert macro is not None
+    assert macro[0] == pytest.approx(0.25 + 0.05 * 0.125)
+    assert macro[1] == pytest.approx(0.375 + 0.95 * 0.125)
+
+
+def test_cluster_bootstrap_identical_repos_collapses() -> None:
+    pairs = [(2, 8)] * 5
+    result = cluster_bootstrap(pairs, bootstrap_draws(5, 200, seed=1))
+    assert result["pooled"] == pytest.approx((0.25, 0.25))
+    assert result["macro"] == pytest.approx((0.25, 0.25))
+
+
+def test_cluster_bootstrap_drops_undefined_resamples() -> None:
+    pairs = [(0, 0), (1, 2)]
+    result = cluster_bootstrap(pairs, [[0, 0], [1, 1]])
+    assert result["pooled"] == pytest.approx((0.5, 0.5))
+
+
+def test_bootstrap_draws_are_reproducible() -> None:
+    assert bootstrap_draws(6, 3, seed=7) == bootstrap_draws(6, 3, seed=7)
+    assert all(len(d) == 6 and all(0 <= i < 6 for i in d) for d in bootstrap_draws(6, 3, 7))
+
+
+# ---------------------------------------------------------------------------
+# Summaries and tables
+# ---------------------------------------------------------------------------
+
+SCHEMES = ("line", "codeguard")
+
+
+def _block(known: int, introduced: int, false_new: dict[str, int], obs: int) -> dict[str, Any]:
+    schemes = {}
+    for s in SCHEMES:
+        schemes[s] = {
+            "known_ok": known - false_new[s],
+            "mispaired": 0,
+            "false_new": false_new[s],
+            "false_known": 1 if s == "line" and introduced else 0,
+            "new_ok": introduced - (1 if s == "line" and introduced else 0),
+            "false_new_equal": false_new[s],
+            "false_new_edited": 0,
+        }
+    return {
+        "totals": {
+            "gt": {
+                "old": known,
+                "new": known + introduced,
+                "known": known,
+                "known_equal": known,
+                "known_edited": 0,
+                "introduced": introduced,
+                "removed": 0,
+            },
+            "schemes": schemes,
+            "files": 1,
+            "renamed_files": 0,
+            "skipped_files": 0,
+        },
+        "collisions": {"observations": obs, "by_scheme": {"line": 0, "codeguard": 2}},
+    }
+
+
+def _summary(label: str, sec: dict[str, Any], qual: dict[str, Any]) -> dict[str, Any]:
+    total = json.loads(json.dumps(sec))
+    for part in ("gt",):
+        for k, v in qual["totals"][part].items():
+            total["totals"][part][k] += v
+    for s in SCHEMES:
+        for k, v in qual["totals"]["schemes"][s].items():
+            total["totals"]["schemes"][s][k] += v
+    total["collisions"]["observations"] += qual["collisions"]["observations"]
+    for s in SCHEMES:
+        total["collisions"]["by_scheme"][s] += qual["collisions"]["by_scheme"][s]
+    return {
+        "label": label,
+        "head": "0" * 40,
+        "commit_pairs": 10,
+        **total,
+        "by_category": {"security": sec, "quality": qual},
+    }
+
+
+@pytest.fixture
+def summaries() -> list[dict[str, Any]]:
+    # Security: A has 1 of 4 line false-new, B 3 of 6.  Quality adds 10 known, none lost.
+    a = _summary(
+        "a",
+        _block(4, 2, {"line": 1, "codeguard": 0}, 10),
+        _block(10, 0, {"line": 0, "codeguard": 0}, 20),
+    )
+    b = _summary(
+        "b",
+        _block(6, 0, {"line": 3, "codeguard": 0}, 10),
+        _block(10, 0, {"line": 0, "codeguard": 0}, 20),
+    )
+    return [a, b]
+
+
+def test_scope_block_and_counts(summaries: list[dict[str, Any]]) -> None:
+    a = summaries[0]
+    assert counts(scope_block(a, ALL) or {}, "line", "false_new") == (1, 14)
+    assert counts(scope_block(a, "security") or {}, "line", "false_new") == (1, 4)
+    assert counts(scope_block(a, "security") or {}, "line", "hidden") == (1, 2)
+    assert counts(scope_block(a, ALL) or {}, "codeguard", "collision") == (4, 30)
+    assert scope_block({"label": "old"}, "security") is None
+
+
+def test_build_tables_pooled_and_spread(summaries: list[dict[str, Any]]) -> None:
+    tables = build_tables(summaries, scopes=(ALL, "security"), resamples=500, seed=3)
+    by = {(r["scope"], r["scheme"], r["metric"]): r for r in tables.pooled}
+
+    sec = by[("security", "line", "false_new")]
+    assert (sec["num"], sec["den"]) == (4, 10)
+    assert sec["pooled"] == pytest.approx(0.4)
+    assert sec["macro"] == pytest.approx(0.375)
+    assert sec["median"] == pytest.approx(0.375)
+    assert sec["q1"] == pytest.approx(0.3125)
+    assert sec["q3"] == pytest.approx(0.4375)
+    lo, hi = wilson(4, 10) or (0.0, 0.0)
+    assert (sec["wilson_lo"], sec["wilson_hi"]) == pytest.approx((lo, hi))
+    # With two repositories every resample is AA, BB or AB: the interval stays in range.
+    assert 0.25 <= sec["boot_lo"] <= sec["boot_hi"] <= 0.5
+
+    everything = by[(ALL, "line", "false_new")]
+    assert (everything["num"], everything["den"]) == (4, 30)
+    assert everything["macro"] == pytest.approx((1 / 14 + 3 / 16) / 2)
+
+    hidden = by[("security", "line", "hidden")]
+    assert (hidden["num"], hidden["den"], hidden["repos_with_rate"]) == (1, 2, 1)
+    edited = by[("security", "line", "false_new_edited")]
+    assert edited["pooled"] is None and edited["median"] is None
+
+    per_repo = [
+        r
+        for r in tables.per_repo
+        if r["scope"] == "security" and r["scheme"] == "line" and r["metric"] == "false_new"
+    ]
+    assert [(r["label"], r["rate"]) for r in per_repo] == [("a", 0.25), ("b", 0.5)]
+    assert tables.repos[0]["security_known"] == 4 and tables.repos[0]["all_known"] == 14
+
+
+def test_missing_scope_is_skipped(summaries: list[dict[str, Any]]) -> None:
+    del summaries[1]["by_category"]
+    tables = build_tables(summaries, scopes=(ALL, "security"), resamples=10)
+    assert {r["scope"] for r in tables.pooled} == {ALL}
+
+
+def test_run_stats_writes_tables(tmp_path: Path, summaries: list[dict[str, Any]]) -> None:
+    results = tmp_path / "results"
+    for s in summaries:
+        (results / s["label"]).mkdir(parents=True)
+        (results / s["label"] / "summary.json").write_text(json.dumps(s))
+    (results / "_logs").mkdir()  # batch logs are not results
+    assert [s["label"] for s in load_summaries([results], ["b", "a", "z"])] == ["b", "a"]
+
+    out = tmp_path / "tables"
+    run_stats([results], out, resamples=50)
+    with (out / "pooled.csv").open() as fh:
+        rows = list(csv.DictReader(fh))
+    row = next(
+        r
+        for r in rows
+        if (r["scope"], r["scheme"], r["metric"]) == ("security", "line", "false_new")
+    )
+    assert math.isclose(float(row["pooled"]), 0.4)
+    assert (out / "per_repo.csv").exists() and (out / "repos.csv").exists()
+    assert "Security findings" in (out / "tables.md").read_text()
+    per_repo_md = (out / "per_repo.md").read_text()
+    assert "| a | 4 | 25.00 | 0.00 |" in per_repo_md  # security: line 1/4, codeguard 0/4