diff --git a/docs/outputs.md b/docs/outputs.md index a39ddeb6..994cf134 100644 --- a/docs/outputs.md +++ b/docs/outputs.md @@ -194,7 +194,7 @@ TODO: FSDERIVS? .. _fsderivs: ### Surface Reconstruction -If any of the surface reconstruction methods are enabled, +If any of the surface reconstruction methods (M-CRIB-S, infant FreeSurfer, or FreeSurfer) are enabled, then a FreeSurfer-like subjects directory is created in `/sourcedata/freesurfer` or the directory indicated with the `--fs-subjects-dir` flag. @@ -229,6 +229,8 @@ This is strictly true when pre-computed FreeSurfer derivatives are provided eith the `sourcedata/` directory or passed via the `--fs-subjects-dir` flag; if NiBabies runs FreeSurfer, then there is a mutual dependency. + **If M-CRIB-S is used** for surface reconstruction, an additional folder is created in `/sourcedata/mcribs`. M-CRIB-S converts and organizes its output into a FreeSurfer-compatible format, i.e. following the structure of FreeSurfer’s [recon-all](https://surfer.nmr.mgh.harvard.edu/fswiki/ReconAllOutputFiles), to `mcribs/sub-