RapidoPGS: A Fast and Light Package to Compute Polygenic Risk Scores

Quickly computes polygenic scores from GWAS summary statistics of either case-control or quantitative traits, without LD matrix computation or parameter tuning. Reales,G., Vigorito, E., Kelemen,M., Wallace,C. (2021) <doi:10.1101/2020.07.24.220392> "RápidoPGS: A rapid polygenic score calculator for summary GWAS data without a test dataset".

Version: 2.1.0
Depends: R (≥ 4.0), data.table, RCurl, curl
Imports: dplyr (≥ 1.0.6), GenomicRanges (≥ 1.42.0), IRanges (≥ 2.24.1), bigsnpr (≥ 1.8.1), coloc (≥ 5.1.0), bigreadr (≥ 0.2.4)
Suggests: knitr, rmarkdown
Published: 2021-06-17
Author: Guillermo Reales ORCID iD [aut, cre], Chris Wallace ORCID iD [aut], Olly Burren ORCID iD [ctb]
Maintainer: Guillermo Reales <gr440 at cam.ac.uk>
License: GPL-3
NeedsCompilation: no
Materials: README NEWS
CRAN checks: RapidoPGS results

Downloads:

Reference manual: RapidoPGS.pdf
Vignettes: Computing a PGS using RápidoPGS-multi
Computing a PGS using RápidoPGS-single and GWAS catalog
Package source: RapidoPGS_2.1.0.tar.gz
Windows binaries: r-devel: RapidoPGS_2.1.0.zip, r-release: RapidoPGS_2.1.0.zip, r-oldrel: RapidoPGS_2.1.0.zip
macOS binaries: r-release (arm64): RapidoPGS_2.1.0.tgz, r-release (x86_64): RapidoPGS_2.1.0.tgz, r-oldrel: RapidoPGS_1.0.2.tgz
Old sources: RapidoPGS archive

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