From ede1912d1ae7450b14f0f5f2e1307fdea8cc2b90 Mon Sep 17 00:00:00 2001 From: Alex <95913221+Pwhsky@users.noreply.github.com> Date: Mon, 21 Sep 2026 13:33:06 +0200 Subject: [PATCH 1/2] update readme links --- README.md | 14 +++++++------- 1 file changed, 7 insertions(+), 7 deletions(-) diff --git a/README.md b/README.md index 0b6fa0f4a..8b5ce3969 100644 --- a/README.md +++ b/README.md @@ -113,7 +113,7 @@ These are examples of how DeepTrack2 can be used on real datasets: Training a fully connected neural network to identify handwritten digits using MNIST dataset. -- DTEx212 **Single Particle Tracking** +- DTEx212 **[Single Particle Tracking](https://github.com/DeepTrackAI/DeepTrack2/blob/develop/tutorials/2-examples/DTEx212_single_particle_tracking.ipynb)** Tracks experimental videos of a single particle. @@ -134,7 +134,7 @@ These are examples of how DeepTrack2 can be used on real datasets:

-- DTEx213 **Multi-Particle Tracking** +- DTEx213 **[Multi-Particle Tracking](https://github.com/DeepTrackAI/DeepTrack2/blob/develop/tutorials/2-examples/DTEx213_multi_particle_tracking.ipynb)** Detecting quantum dots in a low SNR image. @@ -150,7 +150,7 @@ These are examples of how DeepTrack2 can be used on real datasets: Extracting the radius and refractive index of particles. -- DTEx215 **Cell Counting** +- DTEx215 **[Cell Counting](https://github.com/DeepTrackAI/DeepTrack2/blob/develop/tutorials/2-examples/DTEx215_cell_counting.ipynb)** Counting the number of cells in fluorescence images. @@ -164,7 +164,7 @@ These are examples of how DeepTrack2 can be used on real datasets: Specific examples for label-free particle tracking using **LodeSTAR**: -- DTEx231A **LodeSTAR to Detect Particles** +- DTEx231A **[LodeSTAR to Detect Particles](https://github.com/DeepTrackAI/DeepTrack2/blob/develop/tutorials/2-examples/DTEx231A_LodeSTAR_template.ipynb)**

@@ -183,11 +183,11 @@ Specific examples for label-free particle tracking using **LodeSTAR**: - DTEx231C **LodeSTAR to Measure the Mass of Particles in Holography** -- DTEx231D **LodeSTAR to Detect the Cells in the BF-C2DT-HSC Dataset** +- DTEx231D **[LodeSTAR to Detect the Cells in the BF-C2DT-HSC Dataset](https://github.com/DeepTrackAI/DeepTrack2/blob/develop/tutorials/2-examples/DTEx231D_LodeSTAR_track_BF-C2DL-HSC.ipynb)** -- DTEx231E **LodeSTAR to Detect the Cells in the Fluo-C2DT-Huh7 Dataset** +- DTEx231E **[LodeSTAR to Detect the Cells in the Fluo-C2DT-Huh7 Dataset](https://github.com/DeepTrackAI/DeepTrack2/blob/develop/tutorials/2-examples/DTEx231E_LodeSTAR_track_Fluo-C2DL-Huh7.ipynb)** -- DTEx231F **LodeSTAR to Detect the Cells in the PhC-C2DT-PSC Dataset** +- DTEx231F **[LodeSTAR to Detect the Cells in the PhC-C2DT-PSC Dataset](https://github.com/DeepTrackAI/DeepTrack2/blob/develop/tutorials/2-examples/DTEx231F_LodeSTAR_track_PhC-C2DL-PSC.ipynb)** - DTEx231G **LodeSTAR to Detect Plankton** From 304cc43c6266f927d1cae031619f304726cb8203 Mon Sep 17 00:00:00 2001 From: Alex <95913221+Pwhsky@users.noreply.github.com> Date: Mon, 21 Sep 2026 13:58:50 +0200 Subject: [PATCH 2/2] added phase mask, neural tissue --- README.md | 4 ++++ 1 file changed, 4 insertions(+) diff --git a/README.md b/README.md index 8b5ce3969..4673570f1 100644 --- a/README.md +++ b/README.md @@ -216,6 +216,10 @@ Specific examples for graph-neural-network-based particle linking and trace char - DTEx241B **MAGIK to Track HeLa Cells** +- DTEx251 **[Neural tissue segmentation](https://github.com/DeepTrackAI/DeepTrack2/blob/develop/tutorials/2-examples/DTEx251_neural_tissue_segmentation.ipynb)** + +- DTEx252 **[Phase mask optimization](https://github.com/DeepTrackAI/DeepTrack2/blob/develop/tutorials/2-examples/DTEx252_phase_mask_optimization.ipynb)** + # Advanced Tutorials This section provides a list of advanced tutorials. The primary focus of these tutorials is to demonstrate the functionalities of individual modules and how they work in relative isolation, helping to provide a better understanding of them and their roles in DeepTrack2.