physicst/Parkinson_BBB: v1.0.0 - Initial public release accompanying npj Par

Initial public release of the PD-BBB analysis pipeline (2026):

Brain, blood, and cerebrospinal fluid vascular biomarkers reflect distinct biology in Parkinson's disease.

What this release contains

• Full analysis pipeline in seven sequential stages (01_foundation → 07_csf_olink)
• Figure-rendering scripts for all main and supplementary figures
• Supplementary table assembly script
• Pinned conda environment (environment.yml) and configuration (config.yaml)
• Pre-registration documents and complete deviation log

Reproducibility

• PPMI tier-1 data access required (https://www.ppmi-info.org)
• Brain snRNA-seq datasets: GEO accessions GSE178265, GSE157783, GSE140231
• See README.md for run order and software dependencies

Citation

Please cite the accompanying manuscript when using this code.