ReactomePA: Reactome Pathway Analysis
This package provides functions for pathway analysis based on REACTOME pathway database. It implements enrichment analysis, gene set enrichment analysis and several functions for visualization.
Authors
Guangchuang YU, School of Public Health, The University of Hong Kong http://ygc.name
License
All source code is copyright, under the GPL-2 License. For more information on GPL-2 License see http://www.gnu.org/licenses/gpl-2.0.html
Installation
To install:
- the latest released version:
biocLite("ReactomePA")
- the latest development version:
install_github(c("GuangchuangYu/DOSE", "GuangchuangYu/ReactomePA"))
Documentation
- Why clusterProfiler fails
- use clusterProfiler as an universal enrichment analysis tool
- Enrichment map
- dotplot for enrichment result
- functional enrichment for GTEx paper
- functional enrichment analysis with NGS data
To view the vignette of ReactomePA
installed in your system, start R
and enter:
vignette("ReactomePA", package="ReactomePA")
Bugs/Feature requests
- If you have any, let me know. Thx!