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source("http://bioconductor.org/biocLite.R")
biocLite("GOsummaries")
In most cases, you don't need to download the package archive at all.
GOsummaries
Word cloud summaries of GO enrichment analysis
Bioconductor version: 3.0
A package to visualise Gene Ontology (GO) enrichment analysis results on gene lists arising from different analyses such clustering or PCA. The significant GO categories are visualised as word clouds that can be combined with different plots summarising the underlying data.
Author: Raivo Kolde <raivo.kolde at eesti.ee>
Maintainer: Raivo Kolde <raivo.kolde at eesti.ee>
Citation (from within R,
enter citation("GOsummaries")):
Installation
To install this package, start R and enter:
source("http://bioconductor.org/biocLite.R")
biocLite("GOsummaries")
Documentation
To view documentation for the version of this package installed in your system, start R and enter:
browseVignettes("GOsummaries")
| R Script | GOsummaries basics | |
| Reference Manual | ||
| Text | NEWS |
Details
| biocViews | Clustering, GO, GeneExpression, Software, Visualization |
| Version | 2.0.0 |
| In Bioconductor since | BioC 3.0 (R-3.1) |
| License | GPL (>= 2) |
| Depends | R (>= 2.15), ggplot2, Rcpp |
| Imports | plyr, grid, gProfileR, reshape2, limma, gtable |
| LinkingTo | Rcpp |
| Suggests | vegan |
| SystemRequirements | |
| Enhances | |
| URL | https://github.com/raivokolde/GOsummaries |
| Depends On Me | |
| Imports Me | |
| Suggests Me | |
| Build Report |
Package Archives
Follow Installation instructions to use this package in your R session.
| Package Source | GOsummaries_2.0.0.tar.gz |
| Windows Binary | GOsummaries_2.0.0.zip (32- & 64-bit) |
| Mac OS X 10.6 (Snow Leopard) | GOsummaries_2.0.0.tgz |
| Mac OS X 10.9 (Mavericks) | GOsummaries_2.0.0.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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