/ce-bigfish

Repository to automatically process C. elegans smFISH images. This repository uses PySMB to transfer data between Network-attached storage (NAS) and a remote server (Alpine). Then it uses Cellpose to detect and segment embryos on microscope images. Big-FISH is used to quantify the number of spots per cell. Data processed with Pandas. Report with R

Primary LanguageJupyter Notebook

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