This repository includes the scripts and files assiciated with the HybrISS manuscript (https://www.biorxiv.org/content/10.1101/2020.12.02.408781v1)
Two main folders are present in this repository, incuding:
- Preprocess: includes all the scripts used for (1) stiching the images, doing the maximum intensity projection and (2) detecting the spots and segmenting individual cells based on DAPI
- Analysis: includes all the code used for, based on the segmented cells/spots, generate the figures presented in the manuscript. Each script has the name of the figure generated.