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To install this package, start R and enter:
source("http://bioconductor.org/biocLite.R")
biocLite("pathRender")
In most cases, you don't need to download the package archive at all.
pathRender
Render molecular pathways
Bioconductor version: 3.0
build graphs from pathway databases, render them by Rgraphviz
Author: Li Long <lilong at isb-sib.ch>
Maintainer: Li Long <lilong at isb-sib.ch>
Citation (from within R,
enter citation("pathRender")):
Installation
To install this package, start R and enter:
source("http://bioconductor.org/biocLite.R")
biocLite("pathRender")
Documentation
To view documentation for the version of this package installed in your system, start R and enter:
browseVignettes("pathRender")
| R Script | pathRender overview | |
| R Script | pathway graphs colored by expression map | |
| Reference Manual | ||
| Text | NEWS |
Details
| biocViews | GraphAndNetwork, Pathways, Software, Visualization |
| Version | 1.34.0 |
| In Bioconductor since | BioC 1.8 (R-2.3) |
| License | LGPL |
| Depends | graph, Rgraphviz, RColorBrewer, cMAP, AnnotationDbi, methods |
| Imports | |
| LinkingTo | |
| Suggests | ALL, hgu95av2.db |
| SystemRequirements | |
| Enhances | |
| URL | http://www.bioconductor.org |
| Depends On Me | |
| Imports Me | |
| Suggests Me | |
| Build Report |
Package Archives
Follow Installation instructions to use this package in your R session.
| Package Source | pathRender_1.34.0.tar.gz |
| Windows Binary | pathRender_1.34.0.zip |
| Mac OS X 10.6 (Snow Leopard) | pathRender_1.34.0.tgz |
| Mac OS X 10.9 (Mavericks) | pathRender_1.34.0.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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