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BioMedIA / MIRTK

The Medical Image Registration ToolKit (MIRTK), the successor of the IRTK, contains common CMake build configuration files, core libraries, and basic command-line tools. Extension packages are hosted by the MIRTK GitHub group at
https://github.com/MIRTK
Apache License 2.0
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enh: Add -fill-wm-holes option to subdivide-brain-image #757

Closed schuhschuh closed 3 years ago

schuhschuh commented 3 years ago

Add -fill-wm-holes option to subdivide-brain-image which can be set in recon-neonatal-cortex configuration file (fill_wm_holes = True) for cases that have larger holes in between left and right hemisphere to avoid surface errors after merge-surfaces as in the attached screenshots.

(dHCP subjects: CC00152AN04-65700, CC00605XX11-172700, CC00605XX11-187700, CC00936XX21-11431).

Screen Shot 2020-11-24 at 4 40 21 PM Screen Shot 2020-11-24 at 4 37 48 PM

schuhschuh commented 3 years ago

Example dHCP surface CC00152AN04-65700 without (left) and with -fill-wm-holes (right) option: Screen Shot 2020-11-30 at 2 05 08 AM