GGtools
This package is for version 3.9 of Bioconductor. This package has been removed from Bioconductor. For the last stable, up-to-date release version, see GGtools.
software and data for analyses in genetics of gene expression
Bioconductor version: 3.9
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 "3.6") and enter:
if (!require("BiocManager", quietly = TRUE))
install.packages("BiocManager")
BiocManager::install("GGtools")
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")| GGtools: software for eQTL identification | R Script | |
| Reference Manual | ||
| README | Text | |
| NEWS | Text |
Details
| biocViews | GeneExpression, GeneticVariability, Genetics, SNP, Software |
| Version | 5.20.0 |
| In Bioconductor since | BioC 1.9 (R-2.4) (17.5 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 |
| System Requirements | |
| URL |
See More
| Suggests | GGdata, illuminaHumanv1.db, SNPlocs.Hsapiens.dbSNP144.GRCh37, multtest, aod, rmeta |
| Linking To | |
| Enhances | MatrixEQTL, foreach, doParallel, gwascat |
| Depends On Me | ceu1kg, eQTL |
| Imports Me | ceuhm3, GeneGeneInteR |
| Suggests Me | cgdv17, dsQTL, GGBase, gQTLBase, hmyriB36 |
| Links To Me | |
| Build Report | Build Report |
Package Archives
Follow Installation instructions to use this package in your R session.
| Source Package | GGtools_5.20.0.tar.gz |
| Windows Binary | GGtools_5.20.0.zip |
| Mac OS X 10.11 (El Capitan) | GGtools_5.20.0.tgz |
| Source Repository | git clone https://git.bioconductor.org/packages/GGtools |
| Source Repository (Developer Access) | git clone git@git.bioconductor.org:packages/GGtools |
| Bioc Package Browser | https://code.bioconductor.org/browse/GGtools/ |
| Package Short Url | https://bioconductor.org/packages/GGtools/ |
| Package Downloads Report | Download Stats |
| Old Source Packages for BioC 3.9 | Source Archive |