<aside> 💡 This page describes general protocols to remove blood vessels. Downward triangle arrows indicate toggles for expanding and hiding blocks.

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Trials

Blood vessel removing w/ Juhyuk’s data

Unvessel

Step 1: Binarize

First, we need to make a binary stack out of our data. In Fiji, use Binary method to do this.

• Process→Binary→Make Binary

Step 2: Skeletonize

Now, we need to make skeleton images. Refer to this page for more information:

• https://imagej.net/plugins/analyze-skeleton/
• https://imagej.net/plugins/skeletonize3d.
• Analyze→Skeleton→Analyze skeleton(2D/3D)

Step 3: Manual Removal of BV