Repositories list

• pygscatalog

  Public
  Python applications and libraries for working with PGS data and the PGS Catalog

  polygenic-risk-scoresgenetic-risk-scorepolygenic-scores+ 1

  polygenic-risk-scoresgenetic-risk-scorepolygenic-scorespgs-catalog

  Python

  •

  Apache License 2.0

  •88 forks•1414 stars•99 issues•99 pull requests•Updated Aug 14, 2026Aug 14, 2026

• PGS_Catalog

  Public
  An open database of polygenic scores and relevant metadata needed to apply and evaluate them correctly.

  websitedjangorest-api+ 2

  websitedjangorest-apipolygenic-scorespgs-catalog

  Python

  •

  Apache License 2.0

  •22 forks•55 stars•3333 issues•88 pull requests•Updated Aug 10, 2026Aug 10, 2026

• pgs_metadata_exports

  Public
  Package to export PGS Catalog metadata

  Python

  •

  Apache License 2.0

  •22 forks•00 stars•11 issue•00 pull requests•Updated Jul 28, 2026Jul 28, 2026

• deposition-app_pgs-validation

  Public
  Workflow for validating PGS scoring files in a HPC environment, as part of the Deposition/Submission application.

  Python

  •00 forks•00 stars•00 issues•00 pull requests•Updated Jun 19, 2026Jun 19, 2026

• pgs_submission_service

  Public
  PGS Deposition Service for the GWAS/PGS Deposition Application

  Python

  •

  Apache License 2.0

  •00 forks•00 stars•00 issues•11 pull request•Updated Jun 10, 2026Jun 10, 2026

• pgsc_calc

  Public
  The Polygenic Score Catalog Calculator is a nextflow pipeline for polygenic score calculation

  workflownextflowpolygenic-risk-scores+ 7

  workflownextflowpolygenic-risk-scoresprspgsgenetic-risk-scorepolygenic-scorespgs-catalogpolygenic-scorepolygenic-risk-score

  Nextflow

  •

  Apache License 2.0

  •4747 forks•174174 stars•5252 issues•44 pull requests•Updated Jun 3, 2026Jun 3, 2026

• pgs-harmonizer

  Public
  A pipeline to format and harmonise Polygenic Score (PGS) Catalog Scoring Files within and between different genome builds.

  Python

  •

  Apache License 2.0

  •22 forks•77 stars•55 issues•22 pull requests•Updated Mar 26, 2026Mar 26, 2026

• pgs_template_validator

  Public
  Standalone Python validator for the PGS Catalog Curation Template (Metadata)

  Python

  •

  Apache License 2.0

  •22 forks•00 stars•11 issue•00 pull requests•Updated Mar 9, 2026Mar 9, 2026

• ebi-2024-pgsc_calc-webinar

  Public
  Workshop material for the EBI Training webinar about pgsc_calc.

  HTML

  •

  Creative Commons Attribution 4.0 International

  •11 fork•00 stars•00 issues•00 pull requests•Updated Dec 2, 2024Dec 2, 2024

• fraposa_pgsc

  Public
  Tools to perform ancestry projection to a reference dataset within the calculator pipeline (pgsc_calc)

  pcagenetic-ancestrygenomic-ancestry

  pcagenetic-ancestrygenomic-ancestry

  Python

  •

  Other

  •33 forks•77 stars•55 issues•00 pull requests•Updated Aug 8, 2024Aug 8, 2024

• pgscatalog_utils

  Public archive
  (superseded by pygscatalog) Utilities for working with PGS Catalog API and scoring files

  polygenic-risk-scoresgenetic-risk-scorepolygenic-scores+ 1

  polygenic-risk-scoresgenetic-risk-scorepolygenic-scorespgs-catalog

  Python

  •

  Apache License 2.0

  •33 forks•55 stars•88 issues•00 pull requests•Updated Jun 25, 2024Jun 25, 2024

• pgs_variants_coords

  Public
  Repository to fetch and store the variant locations from Polygenic Score files, using their rsIDs

  Python

  •

  Apache License 2.0

  •22 forks•00 stars•00 issues•11 pull request•Updated Nov 1, 2023Nov 1, 2023

• pgs_scoringfile_validator

  Public archive
  Formatting and validating scripts for Polygenic Scoring files

  Python

  •33 forks•00 stars•00 issues•00 pull requests•Updated Jun 8, 2022Jun 8, 2022