inst/extdata/coordmap/README.md

In dfsp-spirit/regfusionr: Registration Fusion in R

The files in the coordmap directory are re-encoded versions of Yeo CBIG files: final_warps_FS5.3/allSub_fsaverage_to_FSL_MNI152_FS4.5.0_RF_ANTs_avgMapping.vertex.mat has been split by hemi and renamed and re-encoded to MGZ format as FSL_MNI152_FS4.5.0_RF_ANTs_avgMapping.vertex.?h.mgz (see code below) liberal_cortex_masks_FS5.3/FSL_MNI152_FS4.5.0_cortex_estimate.nii.gz has been renamed to FSL_MNI152_FS4.5.0_cortex_estimate.nii.gz (moved out of subdir only)

These changes were needed because: 1) storing paths with >100 chars in an R package leads to TAR warnings that this is not portable. 2) reading the .mat files requires extra packages in R.

dd = R.matlab::readMat("inst/extdata/coordmap/allSub_fsaverage_to_FSL_MNI152_FS4.5.0_RF_ANTs_avgMapping.vertex.mat")
freesurferformats::write.fs.mgh("inst/extdata/coordmap/FSL_MNI152_FS4.5.0_RF_ANTs_avgMapping.vertex.rh.mgz", dd$rh.vertex)
freesurferformats::write.fs.mgh("inst/extdata/coordmap/FSL_MNI152_FS4.5.0_RF_ANTs_avgMapping.vertex.lh.mgz", dd$lh.vertex)

dfsp-spirit/regfusionr documentation built on Sept. 4, 2022, 9:32 a.m.