GGtools

DOI: 10.18129/B9.bioc.GGtools    

software and data for analyses in genetics of gene expression

Bioconductor version: Release (3.8)

software and data for analyses in genetics of gene expression and/or DNA methylation

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

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

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

Installation

To install this package, start R (version "3.5") and enter:

if (!requireNamespace("BiocManager", quietly = TRUE))
    install.packages("BiocManager")
BiocManager::install("GGtools", version = "3.8")

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("GGtools")

 

PDF R Script GGtools: software for eQTL identification
PDF   Reference Manual
Text   README
Text   NEWS

Details

biocViews GeneExpression, GeneticVariability, Genetics, SNP, Software
Version 5.18.0
In Bioconductor since BioC 1.9 (R-2.4) (12 years)
License Artistic-2.0
Depends R (>= 2.14), GGBase(>= 3.19.7), data.table, parallel, Homo.sapiens
Imports methods, utils, stats, BiocGenerics(>= 0.25.1), snpStats, ff, Rsamtools, AnnotationDbi, Biobase, bit, VariantAnnotation, hexbin, rtracklayer, Gviz, stats4, S4Vectors(>= 0.9.25), IRanges, GenomeInfoDb, GenomicRanges(>= 1.29.6), iterators, Biostrings, ROCR, biglm, ggplot2, reshape2
LinkingTo
Suggests GGdata, illuminaHumanv1.db, SNPlocs.Hsapiens.dbSNP144.GRCh37, multtest, aod, rmeta
SystemRequirements
Enhances MatrixEQTL, foreach, doParallel, gwascat
URL
Depends On Me ceu1kg, eQTL
Imports Me ceuhm3, GeneGeneInteR
Suggests Me cgdv17, dsQTL, GGBase, gQTLBase, hmyriB36
Links To Me
Build Report  

Package Archives

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

Source Package GGtools_5.18.0.tar.gz
Windows Binary GGtools_5.18.0.zip
Mac OS X 10.11 (El Capitan) GGtools_5.18.0.tgz
Source Repository git clone https://git.bioconductor.org/packages/GGtools
Source Repository (Developer Access) git clone git@git.bioconductor.org:packages/GGtools
Package Short Url http://bioconductor.org/packages/GGtools/
Package Downloads Report Download Stats

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