This repository hosts the FLASH user and developer documentation. It accompanies the Blanchard lab open-source acquisition and analysis tools described in:
An integrated open-source acquisition and analysis ecosystem for high-throughput single-molecule imaging
Nature Methods (2026)
DOI: 10.1038/s41592-026-03265-w
Daniel S. Terry, Roman Kiselev, Manuel F. Juette, Zeliha Kilic, Ryan A. Brady, Yuansheng Sun, Scott C. Blanchard
St. Jude Children’s Research Hospital, Memphis, TN, USA · Weill Cornell Medicine, New York, NY, USA
Correspondence: scott.blanchard@stjude.org
| Resource | URL |
|---|---|
| Read the manual | https://stjude-smc.github.io/FLASH_docs/ (when GitHub Pages is enabled) |
| FLASH software | https://github.com/stjude-smc/FLASH |
If you use FLASH or this documentation in your work, please cite the Nature Methods article (DOI above), not only the GitHub repository. Example:
Terry, D.S., Kiselev, R., Juette, M.F., Kilic, Z., Brady, R.A., Sun, Y. & Blanchard, S.C. An integrated open-source acquisition and analysis ecosystem for high-throughput single-molecule imaging. Nat. Methods (2026). https://doi.org/10.1038/s41592-026-03265-w (Update author list, volume, and page numbers from the final published PDF when available.)
pip install -r docs_flash/requirements.txt
cd docs_flash && make html