gQTLstats

This package is for version 3.10 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


Bioconductor version: 3.10

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 "3.6") 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

Details

biocViews Software
Version 1.18.0
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
See More
Suggests geuvPack, geuvStore2, Rsamtools, knitr, rmarkdown, ggbio, BiocStyle, RUnit, multtest, gwascat, org.Hs.eg.db, TxDb.Hsapiens.UCSC.hg19.knownGene, ldblock
Linking To
Enhances
Depends On Me
Imports Me
Suggests Me gwascat, parglms, yriMulti
Links To Me
Build Report Build Report

Package Archives

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

Source Package gQTLstats_1.18.0.tar.gz
Windows Binary gQTLstats_1.18.0.zip
Mac OS X 10.11 (El Capitan) gQTLstats_1.18.0.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 3.10 Source Archive