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Generate_3D_image_stacks.ijm
NeuroMorph_Import_Objects.py
NeuroMorph_Load_Points.py
NeuroMorph_Mitochondria_Properties.py
NeuroMorph_Naming.py
NeuroMorph_Parent_Child_Tools.py
README.md
correct_Y_mirroring.py

README.md

Full Documentation

Generate 3D Image Stacks

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Macro for Fiji creates image stacks in the X and Y dimensions, given an image stack in Z.

The voxel dimensions from the imaging procedure for the provided sample EM stack [5, 5, 7.4] nm.

Macro courtesy of Tom Boissonnet.

NeuroMorph Parent-Child Tools

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Allows the user to easily to show/hide all children of an object, delete all children of an object, and assign the parent of all selected objects.

NeuroMorph Import Objects

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Import one or many object models from .obj files obtained through 3D image segmentation software (e.g. ilastik or TrakEM2) into Blender.

NeuroMorph Naming

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Previously part of the deprecated NeuroMorph Measurement Tools, allows objects to be named according to a naming convention developed for neural structures.

IMOD to Blender (correct_Y_mirroring.py)

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Tool to correct IMOD-exported meshes by rotating in the Y dimension, so that they can be processed correctly in Blender.

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