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Quincunx: an R package to query, download and wrangle PGS Catalog data.

ABSTRACT: The Polygenic Score (PGS) Catalog is a recently established open database of published polygenic scores that, to date, has collected, curated, and made available 721 polygenic scores from over 133 publications. The PGS Catalog REST API is the only method allowing programmatic access to this resource. Here, we describe quincunx, an R package that provides the first client interface to the PGS Catalog REST API. quincunx enables users to query and quickly retrieve, filter and integrate metadata associated with polygenic scores, as well as polygenic scoring files in tidy table format. quincunx is freely available under an MIT License, and can be accessed from https://github.com/maialab/quincunx. Supplementary data are available at Bioinformatics online.

SUBMITTER: Magno R

PROVIDER: S-EPMC8696104 | biostudies-literature | 2021 Jul

REPOSITORIES: biostudies-literature

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quincunx: an R package to query, download and wrangle PGS Catalog data.

Magno Ramiro R Duarte Isabel I Maia Ana-Teresa AT

Bioinformatics (Oxford, England) 20211201 1

<h4>Motivation</h4>The Polygenic Score (PGS) Catalog is a recently established open database of published polygenic scores that, to date, has collected, curated and made available 721 polygenic scores from over 133 publications. The PGS Catalog REST API is the only method allowing programmatic access to this resource.<h4>Results</h4>Here, we describe quincunx, an R package that provides the first client interface to the PGS Catalog REST API. quincunx enables users to query and quickly retrieve, ...[more]

PMID: 34270693

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