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Mouse-Imaging-Centre / RMINC

Statistics for MINC volumes: A library to integrate voxel-based statistics for MINC volumes into the R environment. Supports getting and writing of MINC volumes, running voxel-wise linear models, correlations, etc.; correcting for multiple comparisons using the False Discovery Rate, and more. With contributions from Jason Lerch, Chris Hammill, Jim Nikelski and Matthijs van Eede. Some additional information can be found here:
https://mouse-imaging-centre.github.io/RMINC
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Feature Request: "Voting" for object files in MAGeT #94

Closed gdevenyi closed 8 years ago

gdevenyi commented 8 years ago

In order to do cortical thickness (MincLaplace) and morphology analysis on objects, we need to transform and vote objects from the atlas onto each of the subjects so they have vertex homology.

I hacked together a script which takes pydpiper outputs and does it here: https://github.com/Mouse-Imaging-Centre/minclaplace/wiki/Generating-cortical-thickness-maps-for-population-level-statistics

But it would be great it were built-in.

gdevenyi commented 8 years ago

R-based object averaging here https://github.com/CobraLab/MAGeTbrain/blob/mb_morpho_tmp/bin/object_average.R

The normals should be re-computed after averaging, which can be done with: smooth_normals input.obj output.obj 0

gdevenyi commented 8 years ago

I totally opened this on the wrong repo, moving to pydpiper.