Microglia Analyzer is a Python module allowing to segment, classify and measure microglia from 2D fluo images. It is also a Napari plugin in case you would need a graphical interface. Each cell is classified according 3 classes: “amoeboid”, “intermediate” and “homeostatic”. The measures (bundled in a CSV file by the end) include:

• The total length of each cell
• The number of junctions for each cell
• The number of end points for each cell
• The average branch length for each cell

From the GUI (Napari), a batch mode is available allowing you to run the whole workflow on an entire folder.

Download and further informations: Microglia-analyzer on github