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GenVisR

This is the development version of GenVisR; for the stable release version, see GenVisR.

Genomic Visualizations in R


Bioconductor version: Development (3.19)

Produce highly customizable publication quality graphics for genomic data primarily at the cohort level.

Author: Zachary Skidmore [aut, cre], Alex Wagner [aut], Robert Lesurf [aut], Katie Campbell [aut], Jason Kunisaki [aut], Obi Griffith [aut], Malachi Griffith [aut]

Maintainer: Zachary Skidmore <zlskidmore at gmail.com>

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

Installation

To install this package, start R (version "4.4") and enter:


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

# The following initializes usage of Bioc devel
BiocManager::install(version='devel')

BiocManager::install("GenVisR")

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("GenVisR")
GenVisR: An introduction HTML R Script
waterfall: function introduction HTML R Script
Reference Manual PDF
NEWS Text
LICENSE Text

Details

biocViews Classification, DNASeq, DataRepresentation, Infrastructure, Software
Version 1.35.0
In Bioconductor since BioC 3.3 (R-3.3) (8 years)
License GPL-3 + file LICENSE
Depends R (>= 3.3.0), methods
Imports AnnotationDbi, biomaRt(>= 2.45.8), BiocGenerics, Biostrings, DBI, GenomicFeatures, GenomicRanges(>= 1.25.4), ggplot2 (>= 2.1.0), gridExtra (>= 2.0.0), gtable, gtools, IRanges(>= 2.7.5), plyr (>= 1.8.3), reshape2, Rsamtools, scales, viridis, data.table, BSgenome, GenomeInfoDb, VariantAnnotation
System Requirements
URL
Bug Reports https://github.com/griffithlab/GenVisR/issues
See More
Suggests BiocStyle, BSgenome.Hsapiens.UCSC.hg19, knitr, RMySQL, roxygen2, testthat, TxDb.Hsapiens.UCSC.hg19.knownGene, rmarkdown, vdiffr, formatR, TxDb.Hsapiens.UCSC.hg38.knownGene, BSgenome.Hsapiens.UCSC.hg38
Linking To
Enhances
Depends On Me
Imports Me
Suggests Me
Links To Me
Build Report Build Report

Package Archives

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

Source Package GenVisR_1.35.0.tar.gz
Windows Binary GenVisR_1.35.0.zip (64-bit only)
macOS Binary (x86_64) GenVisR_1.35.0.tgz
macOS Binary (arm64) GenVisR_1.35.0.tgz
Source Repository git clone https://git.bioconductor.org/packages/GenVisR
Source Repository (Developer Access) git clone git@git.bioconductor.org:packages/GenVisR
Bioc Package Browser https://code.bioconductor.org/browse/GenVisR/
Package Short Url https://bioconductor.org/packages/GenVisR/
Package Downloads Report Download Stats