Commit 0f50b8c1 authored by Christoph Sommer's avatar Christoph Sommer
Browse files

update doc 3

parent 7c11f863
......@@ -2,7 +2,7 @@
#### Automatic 3D Dendritic Spine Quantification with ilastik and Imaris
---
<img src="assets/dendrite+spines_5_1200x400.jpg" alt="Morse and Watson (Jonas group, unpublished)" style="width:512px;"/>
<img src="assets/dendrite+spines_5_1200x400.jpg" alt="Morse and Watson (Jonas group, unpublished)" width="512" style="width:512px;"/>
Morse and Watson (Jonas group, unpublished)
......@@ -70,7 +70,7 @@ python seg2dendrite.py volume_Probabilities.h5 --smooth 0.5 1 1 --threshold 0.5
it will smooth the probability map with sigma ZYX of 0.5 x 1 x 1 and threshold at probability 0.5, filter dendrite objects for minimum size of 12000px.
### ilastik2dendrite.py requires pip installable packages:
### Dependencies (pip-installable)
Python >3.6
* h5py
* skan
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