diff --git a/md5sum.txt b/md5sum.txt index 01eb1f2..15ac0b1 100644 --- a/md5sum.txt +++ b/md5sum.txt @@ -4,7 +4,7 @@ "config.yaml" "3ef23136064fd3627b556860c2d3040f" "site/built/config.yaml" "2024-02-18" "index.md" "78d2be0b54fef4ff7252449003cdc44f" "site/built/index.md" "2024-02-18" "episodes/before-we-start.md" "1e98940ca00552578a4e3b31e6064999" "site/built/before-we-start.md" "2024-02-18" -"episodes/scanner-to-computer.md" "afb07321796dd3ade62eecf6b512b912" "site/built/scanner-to-computer.md" "2024-02-28" +"episodes/scanner-to-computer.md" "4bfdc24a929fe0e133992bb995fdf4d4" "site/built/scanner-to-computer.md" "2024-12-17" "episodes/anatomy-of-nifti.md" "ac2a7fc719d8174b6d6274d7973a8d4b" "site/built/anatomy-of-nifti.md" "2024-02-29" "episodes/data-organization-bids.md" "0b88931c574033a6adad39c34fc340f9" "site/built/data-organization-bids.md" "2024-02-28" "episodes/open-mri-datasets.md" "9025db8aad6a5526209f349b43aa10c0" "site/built/open-mri-datasets.md" "2024-02-28" diff --git a/scanner-to-computer.md b/scanner-to-computer.md index 7288312..5228786 100644 --- a/scanner-to-computer.md +++ b/scanner-to-computer.md @@ -56,13 +56,18 @@ exercises: 10 ## Neuroimaging file formats -| Format Name | File Extension | Origin | -| ----------- | -------------- | ---------------------------------------------- | -| DICOM | none | ACR/NEMA Consortium | -| Analyze | .img/.hdr | Analyze Software, Mayo Clinic | -| NIfTI | .nii | Neuroimaging Informatics Technology Initiative | -| MINC | .mnc | Montreal Neurological Institute | -| NRRD | .nrrd | | +
Common file formats:
+ +| Format Name | File Extension | Origin/Group | More info| +| ----------- | -------------- | --------------------------------------------- |----------- +| DICOM | none or `.dc` | ACR/NEMA Consortium |https://www.dicomstandard.org/ | +| Analyze | `.img`/`.hdr` | Analyze Software, Mayo Clinic |https://eeg.sourceforge.net/ANALYZE75.pdf| +| NIfTI | `.nii` (or `.nii.gz`) | Neuroimaging Informatics Technology Initiative|https://brainder.org/2012/09/23/the-nifti-file-format/| +| MINC | `.mnc` | Montreal Neurological Institute |https://www.mcgill.ca/bic/software/minc| +| NRRD | `.nrrd` | |https://teem.sourceforge.net/nrrd/format.html| +| MGH |`.mgz` or `.mgh` (or `.mgh.gz`) | Massachusetts General Hospital|https://surfer.nmr.mgh.harvard.edu/fswiki/FsTutorial/MghFormat| + + From the MRI scanner, images are initially collected in the DICOM format and can be converted to these other formats to make working with the data easier.