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@GP2code

Global Parkinson's Genetics Program - Code

https://parkinsonsroadmap.org/gp2/
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 10, last updated July 2025.

  • Blog post here
  • DOI: 10.5281/zenodo.15748014
  • When using GP2 release 10 data please use the following acknowledgement:

“Data (DOI 10.5281/zenodo.15748014, release 10) 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

  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 11 1

Repositories

Showing 10 of 43 repositories
  • PD-GeneticCharacterization-inAFRandAAC Public

    This is the online repository for the manuscript titled "Large-scale genetic characterization of Parkinson’s disease in the African and African admixed populations"

    GP2code/PD-GeneticCharacterization-inAFRandAAC’s past year of commit activity
    Jupyter Notebook 0 MIT 1 0 0 Updated Aug 11, 2025
  • SORL1_ADPD Public
    GP2code/SORL1_ADPD’s past year of commit activity
    0 0 0 0 Updated Jul 29, 2025
  • SouthAfrican_PD_PRS Public
    GP2code/SouthAfrican_PD_PRS’s past year of commit activity
    Shell 0 MIT 0 0 0 Updated Jul 29, 2025
  • PGLYRP2_SexDifferences Public

    This is the online repository for the manuscript entitled "Sex-stratified analysis of the potential association between PGLYRP2 rs892145 variant and Parkinson’s disease across diverse ancestral populations "

    GP2code/PGLYRP2_SexDifferences’s past year of commit activity
    Jupyter Notebook 0 MIT 0 0 0 Updated Jul 21, 2025
  • 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 0 MIT 0 0 0 Updated Jul 15, 2025
  • LARGE-PD_Phase2 Public Forked from MataLabCCF/LARGE-PD_Phase2_Paper

    This repository contains a detailed description of all analyses performed as part of the LARGE-PD Phase 2 manuscript. The Latin American Research Consortium on the Genetics of Parkinson’s Disease (LARGE-PD) is an international collaborative effort aimed at understanding the genetic architecture of Parkinson's disease in Latin American populations.

    GP2code/LARGE-PD_Phase2’s past year of commit activity
    0 2 0 0 Updated Jul 11, 2025
  • .github Public
    GP2code/.github’s past year of commit activity
    0 0 0 0 Updated Jul 8, 2025
  • releases Public

    Code from various GP2 releases in perpetuity.

    GP2code/releases’s past year of commit activity
    WDL 1 1 0 0 Updated Jul 8, 2025
  • TMEM175_SCARB2_CTSB_PDrisk Public

    This is the online repository for the manuscript titled "TMEM175, SCARB2 and CTSB associations with Parkinson's disease risk across populations".

    GP2code/TMEM175_SCARB2_CTSB_PDrisk’s past year of commit activity
    Jupyter Notebook 0 MIT 0 0 0 Updated Jul 3, 2025
  • RBD_GWAS_2025 Public Forked from gan-orlab/RBD_GWAS_2025

    This is the online repository of the "Genome-wide association study of REM-sleep behaviour disorder identifies new risk loci" manuscript.

    GP2code/RBD_GWAS_2025’s past year of commit activity
    Shell 0 MIT 1 0 0 Updated Jul 2, 2025
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People

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