Setup Folders and Files

Owned by Paul Macey
Last updated: Mar 05, 2024 by Paul Macey (admin)
1 min read

Folder levels are: project \ group \ study

Study can have multiple sessions; if so, use the BIDS convention: sess01, sess02 etc. Otherwise, have the session folders in the study folder.

Session folders

Folder

Contents (see below)

Comment

Folder

Contents (see below)

Comment

…\anatomical

…\coreg(native)

…\preproc

optional (unused)

…\raw

Required for all processing

Usually a T2-weighted image. If a T2map series was collected, one of the earlier images in the sequence (shorter TE?), but not the first one.

…\DTI

…\raw, …\coreg, …\preproc

 

…\fMRI

…\raw, …\coreg, …\preproc

 

…\T2map

…\raw, …\coreg, …\preproc

 

…\VBM

…\raw, …\coreg, …\preproc

Automatically generated from anatomical

Inside each modality folder:

…\raw (not needed for anatomical)

…\coreg (“coreg (native)” for anatomical, since this defines native space)

…\preproc

 So the idea is that the coreg is ONLY the single file that needs manual coregistering.

 Preproc will be where files are for “Prerocess after coreg”