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Topp-Roots-Lab / 3d-root-crown-analysis-pipeline

A pipeline to process 3-D volumes (.raw) of maize root crowns. Also known as XRCAP.
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Conversion tool for binary image to PCD (.out and .obj) #28

Open tparkerd opened 3 years ago

tparkerd commented 3 years ago

Is your feature request related to a problem? Please describe. People may want to be able to edit the binary images produced during segmentation without having to doctor the grayscale images and hope for the best during segmentation.

Describe the solution you'd like A direct path from binary image to point cloud data.

Describe alternatives you've considered I've considered using Blender to alter the .out and .obj files, but the file format for OBJ and OUT are either the implementation used by Skeleton is standard or there is not standard for the file format.

tparkerd commented 3 years ago

A workaround could be to use a user-defined global threshold value of 0 to convert a set of binary images. This will just copy (and downsample as needed) and convert to PCD file formats (.obj & .out).

See feature/user-defined-thresholding for progress.