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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 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: 2.3.0
Depends: R (≥ 4.3), data.table, RCurl, curl, magrittr
Imports: dplyr (≥ 1.1.3), GenomicRanges (≥ 1.52.0), IRanges (≥ 2.34.1), bigsnpr (≥ 1.12.2), coloc (≥ 5.2.3), bigreadr (≥ 0.2.5)
Suggests: knitr, rmarkdown
Published: 2023-10-13
DOI: 10.32614/CRAN.package.RapidoPGS
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
Citation: RapidoPGS citation info
Materials: README NEWS
CRAN checks: RapidoPGS results

Documentation:

Reference manual: RapidoPGS.pdf
Vignettes: Computing a PGS using RápidoPGS-multi
Computing a PGS using RápidoPGS-single and GWAS catalog

Downloads:

Package source: RapidoPGS_2.3.0.tar.gz
Windows binaries: r-devel: RapidoPGS_2.3.0.zip, r-release: RapidoPGS_2.3.0.zip, r-oldrel: RapidoPGS_2.3.0.zip
macOS binaries: r-release (arm64): RapidoPGS_2.3.0.tgz, r-oldrel (arm64): RapidoPGS_2.3.0.tgz, r-release (x86_64): RapidoPGS_2.3.0.tgz, r-oldrel (x86_64): RapidoPGS_2.3.0.tgz
Old sources: RapidoPGS archive

Linking:

Please use the canonical form https://CRAN.R-project.org/package=RapidoPGS to link to this page.

These binaries (installable software) and packages are in development.
They may not be fully stable and should be used with caution. We make no claims about them.