nkorobkov / microglia-or Goto Github PK

when two components connect line is drawn to illustrate connection. Line is drawn between two edge points that are closer than threshold. But it would be nice to draw it between points with minimal distance.

Report hull convex area to reported info.

Need to know wether to add axons to convex or no.

https://docs.opencv.org/3.0-beta/doc/py_tutorials/py_imgproc/py_contours/py_contours_more_functions/py_contours_more_functions.html

Hi @nkorobkov ,

Thank you for this repo. I found your notebooks super helpful in my own microglial segmentation. I have a couple of questions:

1. How do I cite this work?
2. Is the methodology explained/from some other paper that I could look more closely into?

Best,
Aditya

At some point during the algorithm we decide not to use some components (possible axons without host nucl around).
We still have info about those in markers and components index. It may be useful to discard it not to iterate over it during edges and sizes recalculations.

Connecting two components with a line means that this line actually exists in different dimention and we need to use this info when calculating perimeter.

Consider recalc all edges after merging.