Documentation site for the MesoConnect Atlas, a 7 T probabilistic atlas of mesolimbic white-matter pathways. The site describes corridor-constrained tractography: a tract atlas is warped into each participant and dilated into a corridor, the participant's own MRtrix3 tractography is run within it, the bundle is cleaned with pyAFQ, microstructure is profiled at 100 nodes, and group-level models are fitted at the whole-tract, quartile and node level. A 3 T dataset (57 participants, ventral tegmental area → hippocampus) serves as the example.
Site: https://diffusiontensorimaging-repos.github.io/MesoConnect-Tutorial/ Preprocessing prerequisite: https://diffusiontensorimaging-repos.github.io/Diffusion-MRI-Preprocessing/
docs/ tutorial pages (Docusaurus markdown)
atlas/ atlas overview, tract families and ROIs, downloads
workflow/ the nine steps
appendix/ whole-tract extraction, synthetic streamlines
reference/ parameters, troubleshooting, software, scripts, citation
static/atlas/ seed and target regions for the example (MNI 1 mm)
static/downloads/ the MesoConnect atlas package (mirror of the authors' release)
static/scripts/ step scripts 00b to 09c, driven by 00_config.sh
static/explorer/ Node-wise Tract Explorer (self-contained HTML) and sample data
static/img/ example-dataset figures (de-identified)
static/supplement/ Supplementary Methods (PDF, DOCX) compiled from the pages
tools/ embed_scripts.py (scripts -> pages; runs before every build)
build_supplement.py (pages -> Supplementary Methods; run manually)
src/pages/ landing page
npm install
npm run start # development server
npm run build # static site in build/
npm run serve # serve the build locallyPushes to main are built and deployed to GitHub Pages by .github/workflows/deploy.yml.