To install this package, start R and enter:

## try http:// if https:// URLs are not supported
source("https://bioconductor.org/biocLite.R")
biocLite("cummeRbund")

In most cases, you don't need to download the package archive at all.

cummeRbund

DOI: 10.18129/B9.bioc.cummeRbund

Analysis, exploration, manipulation, and visualization of Cufflinks high-throughput sequencing data.

Bioconductor version: Release (3.5)

Allows for persistent storage, access, exploration, and manipulation of Cufflinks high-throughput sequencing data. In addition, provides numerous plotting functions for commonly used visualizations.

Author: L. Goff, C. Trapnell, D. Kelley

Maintainer: Loyal A. Goff <lgoff at csail.mit.edu>

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

Installation

To install this package, start R and enter:

## try http:// if https:// URLs are not supported
source("https://bioconductor.org/biocLite.R")
biocLite("cummeRbund")

Documentation

To view documentation for the version of this package installed in your system, start R and enter: 

browseVignettes("cummeRbund")
PDF R Script CummeRbund User Guide
PDF R Script Sample cummeRbund workflow
PDF Reference Manual
Text README
Text NEWS

Details

biocViews Bioinformatics, Clustering, DataImport, DataRepresentation, DifferentialExpression, GeneExpression, HighThroughputSequencing, HighThroughputSequencingData, Infrastructure, MultipleComparisons, QualityControl, RNAseq, RNAseqData, Software, Visualization
Version 2.18.0
In Bioconductor since BioC 2.9 (R-2.14) (6 years)
License Artistic-2.0
Depends R (>= 2.7.0), BiocGenerics(>= 0.3.2), RSQLite, ggplot2, reshape2, fastcluster, rtracklayer, Gviz
Imports methods, plyr, BiocGenerics, S4Vectors(>= 0.9.25), Biobase
LinkingTo
Suggests cluster, plyr, NMFN, stringr, GenomicFeatures, GenomicRanges, rjson
SystemRequirements
Enhances
URL
Depends On Me meshr, spliceR
Imports Me
Suggests Me oneChannelGUI
Build Report

Package Archives

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

Source Package cummeRbund_2.18.0.tar.gz
Windows Binary cummeRbund_2.18.0.zip
Mac OS X 10.11 (El Capitan) cummeRbund_2.18.0.tgz
Source Repository git clone https://git.bioconductor.org/packages/cummeRbund
Package Short Url http://bioconductor.org/packages/cummeRbund/
Package Downloads Report Download Stats

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