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RegParallel

Standard regression functions in R enabled for parallel processing over large data-frames


Bioconductor version: Release (3.18)

In many analyses, a large amount of variables have to be tested independently against the trait/endpoint of interest, and also adjusted for covariates and confounding factors at the same time. The major bottleneck in these is the amount of time that it takes to complete these analyses. With RegParallel, a large number of tests can be performed simultaneously. On a 12-core system, 144 variables can be tested simultaneously, with 1000s of variables processed in a matter of seconds via 'nested' parallel processing. Works for logistic regression, linear regression, conditional logistic regression, Cox proportional hazards and survival models, and Bayesian logistic regression. Also caters for generalised linear models that utilise survey weights created by the 'survey' CRAN package and that utilise 'survey::svyglm'.

Author: Kevin Blighe [aut, cre], Sarega Gurudas [ctb], Jessica Lasky-Su [aut]

Maintainer: Kevin Blighe <kevin at clinicalbioinformatics.co.uk>

Citation (from within R, enter citation("RegParallel")):

Installation

To install this package, start R (version "4.3") and enter:


if (!require("BiocManager", quietly = TRUE))
    install.packages("BiocManager")

BiocManager::install("RegParallel")

For older versions of R, please refer to the appropriate Bioconductor release.

Documentation

To view documentation for the version of this package installed in your system, start R and enter:

browseVignettes("RegParallel")
Standard regression functions in R enabled for parallel processing over large data-frames HTML R Script
Reference Manual PDF
NEWS Text

Details

biocViews DiseaseModel, ExperimentData
Version 1.20.0
License GPL-3
Depends doParallel, foreach, parallel, iterators, data.table, stringr, survival, arm, stats, utils, methods
Imports
System Requirements
URL https://github.com/kevinblighe/RegParallel
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Suggests RUnit, BiocGenerics, knitr, DESeq2, airway, magrittr, Biobase, GEOquery, biomaRt, survminer, survey, rmarkdown
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Package Archives

Follow Installation instructions to use this package in your R session.

Source Package RegParallel_1.20.0.tar.gz
Windows Binary
macOS Binary (x86_64)
macOS Binary (arm64)
Source Repository git clone https://git.bioconductor.org/packages/RegParallel
Source Repository (Developer Access) git clone git@git.bioconductor.org:packages/RegParallel
Package Short Url https://bioconductor.org/packages/RegParallel/
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