FIAT - Fluorescence Image Analysis Tools

# FIAT - Fluorescence Image Analysis Tools Assorted tools for Fluorescence Image Analysis A range of tools implemented mostly as Jupyter Notebooks ## Contents 1. Image region extraction guided by ROI files - [Sample notebook for image region extraction.ipynb](https://github.com/TeamMacLean/fiat/blob/master/jupyter_notebooks/Sample%20notebook%20for%20endosome%20(small%20blob)%20counting.ipynb) 2. Endosome (small blob) counting tool - [Sample notebook for endosome (small blob) counting.ipynb](https://github.com/TeamMacLean/fiat/blob/master/jupyter_notebooks/Sample%20notebook%20for%20image%20region%20extraction.ipynb) ## Prerequisites Depends on the Python package [FluorSeg](https://github.com/TeamMacLean/fluorseg) ``` pip install FluorSeg ```