Package: RapidoPGS 2.3.1.9000

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".

Authors:Guillermo Reales [aut, cre], Chris Wallace [aut], Olly Burren [ctb]

RapidoPGS_2.3.1.9000.tar.gz
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RapidoPGS.pdf |RapidoPGS.html✨
RapidoPGS/json (API)
NEWS

# Install 'RapidoPGS' in R:
install.packages('RapidoPGS', repos = c('https://grealesm.r-universe.dev', 'https://cloud.r-project.org'))

Bug tracker:https://github.com/grealesm/rapidopgs/issues

Datasets:

On CRAN:

5.59 score 13 stars 9 scripts 245 downloads 5 exports 93 dependencies

Last updated 6 hours agofrom:dec994e71d. Checks:8 OK. Indexed: yes.

TargetResultLatest binary
Doc / VignettesOKFeb 19 2025
R-4.5-winOKFeb 19 2025
R-4.5-macOKFeb 19 2025
R-4.5-linuxOKFeb 19 2025
R-4.4-winOKFeb 19 2025
R-4.4-macOKFeb 19 2025
R-4.3-winOKFeb 19 2025
R-4.3-macOKFeb 19 2025

Exports:create_1000Ggwascat.downloadrapidopgs_multirapidopgs_singlesd.prior.est

Dependencies:askpassBHbigassertrbigparallelrbigreadrbigsnprbigsparserbigstatsrbigutilsrBiocGenericsbitbitopsclicodetoolscoloccolorspacecowplotcrayoncurldata.tableDEoptimRdigestdoParalleldoRNGdplyrfansifarverffflockforeachgenericsGenomeInfoDbGenomeInfoDbDataGenomicRangesggplot2gluegridExtragtablehttrIRangesirlbaisobanditeratorsjsonlitelabelinglatticelifecyclemagrittrMASSMatrixmatrixStatsmgcvmimemixsqpmunsellnabornlmeopensslparallellypillarpkgconfigplyrpsR6RColorBrewerRcppRcppArmadilloRcppEigenRCurlreshapeRhpcBLASctlrlangrmiorngtoolsrobustbaseroptimRSpectrarunonceS4VectorsscalessusieRsystibbletidyselecttriebeardUCSC.utilsurltoolsutf8vctrsviridisviridisLitewithrXVector

Computing a PGS using RápidoPGS-multi

Guillermo Reales

Rendered fromComputing_RapidoPGSmulti.Rmdusingknitr::rmarkdownon Feb 19 2025.

Last update: 2023-10-12
Started: 2021-04-14

Computing a PGS using RápidoPGS-single and GWAS catalog

Guillermo Reales

Rendered fromComputing_RapidoPGSsingle.Rmdusingknitr::rmarkdownon Feb 19 2025.

Last update: 2025-02-19
Started: 2021-04-14