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@GP2code

Global Parkinson's Genetics Program - Code

https://gp2.org/
README.md

Official GP2 Code Organization and Repositories

Welcome to the official Global Parkinson's Genetics Program (GP2) code repositories!

Current Release

Our latest release is release 11, last updated December 2025.

  • Blog post here
  • DOI: 10.5281/zenodo.17753486
  • When using GP2 release 11 data, please use the following acknowledgement:

“Data (DOI 10.5281/zenodo.17753486, release 11) and/or code used in the preparation of this article were obtained from Global Parkinson’s Genetics Program (GP2). GP2 is funded by the Aligning Science Across Parkinson’s (ASAP) initiative and implemented by The Michael J. Fox Foundation for Parkinson’s Research (https://gp2.org). For a complete list of GP2 members see https://gp2.org.”

For a list of previous releases and DOIs, please see here

Quality Control Pipelines

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  1. GenoTools GenoTools Public

    Forked from dvitale199/GenoTools

    A suite of tools for processing genotype data. Includes calling genotypes from .idat to plink (ped), sample/case-control variant QC steps, ancestry estimation. UNDER DEVELOPMENT

    Python 15 2

  2. GP2-WorkingGroups GP2-WorkingGroups Public

    These are repositories and projects directly from GP2 members

    WDL 2 2

  3. NeuroBoosterArray NeuroBoosterArray Public

    Forked from mikeDTI/GloboNeuroArray

    Process and code for building content lists for NeuroBoosterArray.

  4. releases releases Public

    Code from various GP2 releases in perpetuity.

    WDL 1 1

  5. CNV-Finder CNV-Finder Public

    Forked from nvk23/CNV-Finder

    Expedite large-scale identification of CNVs within predefined genomic regions. Online app available for those with GP2 Tier 2 Access.

    Python 12 1

  6. GP2-Data-Dictionary GP2-Data-Dictionary Public

    2 3

Repositories

Showing 10 of 57 repositories
  • SORL1_ADPD Public
    GP2code/SORL1_ADPD’s past year of commit activity
    Jupyter Notebook 0 MIT 1 0 0 Updated Apr 6, 2026
  • GP2-precision-medicine Public

    This is the online repository for the manuscript titled "Bridging Genetics and Precision Medicine in Parkinson’s Disease through GP2".

    GP2code/GP2-precision-medicine’s past year of commit activity
    Jupyter Notebook 0 MIT 0 0 0 Updated Mar 26, 2026
  • GP2-Project-Templates Public

    A repo to host data entry templates for active GP2 projects

    GP2code/GP2-Project-Templates’s past year of commit activity
    1 0 0 0 Updated Mar 24, 2026
  • CNV-Finder Public Forked from nvk23/CNV-Finder

    Expedite large-scale identification of CNVs within predefined genomic regions. Online app available for those with GP2 Tier 2 Access.

    GP2code/CNV-Finder’s past year of commit activity
    Python 12 Apache-2.0 2 0 0 Updated Mar 16, 2026
  • Cross_ancestry_PRS_AMR Public

    This repository contains all analyses for the manuscript titled "Cross-ancestry performance of Parkinson’s disease polygenic risk scores in admixed Latin American populations"

    GP2code/Cross_ancestry_PRS_AMR’s past year of commit activity
    Jupyter Notebook 0 MIT 0 0 0 Updated Mar 2, 2026
  • GP2-AFR-AAC-metaGWAS Public

    All materials for "Genome-wide Association Identifies Novel Etiological Insights Associated with Parkinson’s Disease in African and African Admixed Populations"

    GP2code/GP2-AFR-AAC-metaGWAS’s past year of commit activity
    Jupyter Notebook 4 MIT 1 1 0 Updated Mar 1, 2026
  • MAPThaplotype Public

    This is the online repository for the manuscript titled "Exploring MAPT-containing H1 and H2 haplotypes in Parkinson's Disease across diverse populations"

    GP2code/MAPThaplotype’s past year of commit activity
    Jupyter Notebook 1 MIT 0 0 0 Updated Feb 12, 2026
  • PDMultiome Public Forked from corceslab/2026_Menon_PD-Multiome

    This is the online repository for the manuscript titled "Massive-scale single-nucleus multi-omics identifies novel rare noncoding drivers of Parkinson’s disease".

    GP2code/PDMultiome’s past year of commit activity
    R 0 MIT 2 0 0 Updated Feb 9, 2026
  • long-gwas-pipeline Public

    active development hub since 2025

    GP2code/long-gwas-pipeline’s past year of commit activity
    Python 2 1 0 0 Updated Feb 5, 2026
  • GenoTools Public Forked from dvitale199/GenoTools

    A suite of tools for processing genotype data. Includes calling genotypes from .idat to plink (ped), sample/case-control variant QC steps, ancestry estimation. UNDER DEVELOPMENT

    GP2code/GenoTools’s past year of commit activity
    Python 15 Apache-2.0 8 0 0 Updated Feb 5, 2026
View all repositories

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