gQTLstats

This package is for version 3.12 of Bioconductor. This package has been removed from Bioconductor. For the last stable, up-to-date release version, see gQTLstats.

gQTLstats: computationally efficient analysis for eQTL and allied studies

DOI: 10.18129/B9.bioc.gQTLstats

Bioconductor version: 3.12

computationally efficient analysis of eQTL, mQTL, dsQTL, etc.

Author: VJ Carey <stvjc at channing.harvard.edu>

Maintainer: VJ Carey <stvjc at channing.harvard.edu>

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

Installation

To install this package, start R (version "4.0") and enter:


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

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("gQTLstats")

gQTLstats: statistics for genetics of genomic features HTML R Script

Reference Manual PDF

NEWS Text

Need some help? Ask on the Bioconductor Support site!

Details

biocViews Software

Version 1.21.3

In Bioconductor since BioC 3.1 (R-3.2) (9 years)

License Artistic-2.0

Depends R (>= 3.5.0), Homo.sapiens

Imports methods, snpStats, BiocGenerics, S4Vectors(>= 0.9.25), IRanges, GenomeInfoDb, GenomicFiles, GenomicRanges, SummarizedExperiment, VariantAnnotation, Biobase, BatchJobs, gQTLBase, limma, mgcv, dplyr, AnnotationDbi, GenomicFeatures, ggplot2, reshape2, doParallel, foreach, ffbase, BBmisc, beeswarm, HardyWeinberg, graphics, stats, utils, shiny, plotly, erma, ggbeeswarm

System Requirements

URL

Suggests geuvPack, geuvStore2, Rsamtools, knitr, rmarkdown, ggbio, BiocStyle, RUnit, multtest, gwascat, org.Hs.eg.db, TxDb.Hsapiens.UCSC.hg19.knownGene, ldblock

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Package Archives

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

Source Package gQTLstats_1.21.3.tar.gz

Windows Binary gQTLstats_1.21.3.zip

macOS 10.13 (High Sierra) gQTLstats_1.21.3.tgz

Source Repository git clone https://git.bioconductor.org/packages/gQTLstats

Source Repository (Developer Access) git clone git@git.bioconductor.org:packages/gQTLstats

Bioc Package Browser https://code.bioconductor.org/browse/gQTLstats/

Package Short Url https://bioconductor.org/packages/gQTLstats/

Package Downloads Report Download Stats

Old Source Packages for BioC 3.12 Source Archive