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To install this package, start R and enter:
## try http:// if https:// URLs are not supported
source("https://bioconductor.org/biocLite.R")
biocLite("DEGreport")
In most cases, you don't need to download the package archive at all.
DEGreport
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Report of DEG analysis
Bioconductor version: Release (3.5)
Creation of a HTML report of differential expression analyses of count data. It integrates some of the code mentioned in DESeq2 and edgeR vignettes, and report a ranked list of genes according to the fold changes mean and variability for each selected gene.
Author: Lorena Pantano [aut, cre], John Hutchinson [ctb], Victor Barrera [ctb], Mary Piper [ctb]
Maintainer: Lorena Pantano <lorena.pantano at gmail.com>
Citation (from within R,
enter citation("DEGreport")):
Installation
To install this package, start R and enter:
## try http:// if https:// URLs are not supported
source("https://bioconductor.org/biocLite.R")
biocLite("DEGreport")
Documentation
To view documentation for the version of this package installed in your system, start R and enter:
browseVignettes("DEGreport")
| R Script | DEGreport | |
| Reference Manual | ||
| Text | NEWS | |
| Text | LICENSE |
Details
| biocViews | DifferentialExpression, GeneExpression, RNASeq, ReportWriting, Software, Visualization |
| Version | 1.12.0 |
| In Bioconductor since | BioC 3.0 (R-3.1) (3 years) |
| License | MIT + file LICENSE |
| Depends | R (>= 3.2.0), quantreg |
| Imports | utils, methods, ggplot2, ggrepel, Nozzle.R1, coda, edgeR, cluster, logging, dplyr, tidyr, reshape, pheatmap, grid, gridExtra, knitr, grDevices, stats |
| LinkingTo | |
| Suggests | biomaRt, RUnit, BiocStyle, BiocGenerics, org.Hs.eg.db, DESeq2, AnnotationDbi, BiocParallel |
| SystemRequirements | |
| Enhances | |
| URL | |
| Depends On Me | |
| Imports Me | |
| Suggests Me | |
| Build Report |
Package Archives
Follow Installation instructions to use this package in your R session.
| Source Package | DEGreport_1.12.0.tar.gz |
| Windows Binary | DEGreport_1.12.0.zip |
| Mac OS X 10.11 (El Capitan) | DEGreport_1.12.0.tgz |
| Source Repository | git clone https://git.bioconductor.org/packages/DEGreport |
| Package Short Url | http://bioconductor.org/packages/DEGreport/ |
| Package Downloads Report | Download Stats |
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