diff --git a/.codespellrc b/.codespellrc index 9a3c973eab..235bfba7e7 100644 --- a/.codespellrc +++ b/.codespellrc @@ -1,7 +1,7 @@ [codespell] skip = *.js,*.svg,*.eps,.git,node_modules,env,venv,.mypy_cache,package-lock.json,CITATION.cff,tools/new_contributors.tsv,./tools/schemacode/docs/build,venvs ignore-regex = \bHEP\b -ignore-words-list = acknowledgements,als,bu,fo,te,weill,winn +ignore-words-list = acknowledgements,als,bu,fo,te,weill,winn,fixel,fixels builtin = clear,rare,en-GB_to_en-US # this overloads default dictionaries and I have not yet figured out # how to have multiple https://github.com/codespell-project/codespell/issues/2727 diff --git a/mkdocs.yml b/mkdocs.yml index c81a99bc26..e0f004d4cd 100644 --- a/mkdocs.yml +++ b/mkdocs.yml @@ -29,6 +29,7 @@ nav: - BIDS Derivatives: derivatives/introduction.md - Common data types and metadata: derivatives/common-data-types.md - Imaging data types: derivatives/imaging.md + - Diffusion MRI: derivatives/diffusion-derivatives.md - Templates and atlases: derivatives/atlas.md - Longitudinal and multi-site studies: longitudinal-and-multi-site-studies.md - Glossary: glossary.md @@ -157,6 +158,7 @@ plugins: "05-derivatives/01-introduction.md": "derivatives/introduction.md" "05-derivatives/02-common-data-types.md": "derivatives/common-data-types.md" "05-derivatives/03-imaging.md": "derivatives/imaging.md" + "05-derivatives/03-diffusion.md": "derivatives/diffusion-derivatives.md" "06-longitudinal-and-multi-site-studies.md": "longitudinal-and-multi-site-studies.md" "07-extensions.md": "extensions.md" "99-appendices/14-glossary.md": "glossary.md" diff --git a/src/derivatives/diffusion-derivatives.md b/src/derivatives/diffusion-derivatives.md new file mode 100644 index 0000000000..2b7f118e3e --- /dev/null +++ b/src/derivatives/diffusion-derivatives.md @@ -0,0 +1,166 @@ +# Diffusion derivatives + +## Diffusion-based tractography + +Tractography based on diffusion-weighted MRI data is stored as streamlines in +the [TRX file format](https://tee-ar-ex.github.io): + +```Text +/ + sub-