To install this package, start R and enter:
source("http://bioconductor.org/biocLite.R")
biocLite("GENE.E")
In most cases, you don't need to download the package archive at all.
GENE.E
Interact with GENE-E from R
Bioconductor version: 3.0
Interactive exploration of matrices in GENE-E.
Author: Joshua Gould
Maintainer: Joshua Gould <jgould at broadinstitute.org>
Citation (from within R,
enter citation("GENE.E")):
Installation
To install this package, start R and enter:
source("http://bioconductor.org/biocLite.R")
biocLite("GENE.E")
Documentation
To view documentation for the version of this package installed in your system, start R and enter:
browseVignettes("GENE.E")
| HTML | R Script | GENE.E Overview |
| Reference Manual |
Details
| biocViews | Software, ThirdPartyClient |
| Version | 1.6.0 |
| In Bioconductor since | BioC 2.12 (R-3.0) |
| License | GPL-2 |
| Depends | R (>= 2.7.0), rhdf5(>= 2.8.0), RCurl (>= 1.6-6) |
| Imports | rhdf5, RCurl |
| LinkingTo | |
| Suggests | RUnit, BiocGenerics, knitr, golubEsets(>= 1.0) |
| SystemRequirements | GENE-E software. |
| Enhances | |
| URL | http://www.broadinstitute.org/cancer/software/GENE-E |
| Depends On Me | |
| Imports Me | |
| Suggests Me | |
| Build Report |
Package Archives
Follow Installation instructions to use this package in your R session.
| Package Source | GENE.E_1.6.0.tar.gz |
| Windows Binary | GENE.E_1.6.0.zip |
| Mac OS X 10.6 (Snow Leopard) | GENE.E_1.6.0.tgz |
| Mac OS X 10.9 (Mavericks) | GENE.E_1.6.0.tgz |
| Browse/checkout source | (username/password: readonly) |
| Package Downloads Report | Download Stats |
Common Bioconductor workflows include:
- Oligonucleotide Arrays
- High-throughput Sequencing
- Counting Reads for Differential Expression (parathyroideSE vignette)
- Annotation
- Annotating Variants
- Annotating Ranges
- Flow Cytometry and other assays
- Candidate Binding Sites for Known Transcription Factors
- Cloud-enabled cis-eQTL search and annotation
- RNA-Seq workflow: gene-level exploratory analysis and differential expression
- Changing genomic coordinate systems with rtracklayer::liftOver
- Mass spectrometry and proteomics data analysis
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