Context Navigation

Amira

v10	v11
1	1	=== October 6, 2015 ===
2	2
3		Amira segments the data to do skeletonization. This means it throws out pixels below a certain user defined threshold. Of the remaining pixels it 1) finds a centerline through the data that, 2) is through the middle ~~of the filament, and then 3) thins this line to be 1 pixel across. This is all to retain homotopy of the filamentary network. This is not ideal for column density maps,~~ as the threshold is lowered to account for lower density pixels, the structures get blown out and the skeletonization algorithm breaks down. Here are some images that gradually increase the threshold to illustrate this (smaller to larger thresholds):
	3	Amira segments the data to do skeletonization. This means it throws out pixels below a certain user defined threshold. Of the remaining pixels it 1) finds a centerline through the data that, 2) is through the middle, and then 3) thins this line to be 1 pixel across. This is all to retain "homotopy" of the filamentary network. This is not ideal for column density data: as the threshold is lowered to account for lower density pixels, the structures get blown out and the skeletonization algorithm breaks down. Here are some images that gradually increase the threshold to illustrate this (smaller to larger thresholds):
4	4
5	5	[[Image(2757full.png)]][[Image(2757thresh.png)]]