Using the EpiTools
plugin for napari
#
The following steps are part of the typical EpiTools
workflow.
Projection
The following video demonstrates how the projection step can be performed.
Segmentation
The following video demonstrates how the segmentation step can be performed.
Correcting Segmentation
If the segmentation output needs correction we would recommend the segment blobs and things with membranes plugin. This allows one to manually split and merge labels.
Tracking
To perform tracking we would recommend the brack plugin.
Correcting Tracking
This is not currently possible with EpiTools
/btrack
.
Cell Statistics
EpiTools
includes methods to extract a variety of statistics from the cells.
This video shows how to have a colour map for a given cell property, i.e. neighbours.
This video demonstrates how to export and save the cell statistics output.