To install this package, start R and enter:
source("http://bioconductor.org/biocLite.R")
biocLite("ibh")
In most cases, you don't need to download the package archive at all.
ibh
Interaction Based Homogeneity for Evaluating Gene Lists
Bioconductor version: 3.0
This package contains methods for calculating Interaction Based Homogeneity to evaluate fitness of gene lists to an interaction network which is useful for evaluation of clustering results and gene list analysis. BioGRID interactions are used in the calculation. The user can also provide their own interactions.
Author: Kircicegi Korkmaz, Volkan Atalay, Rengul Cetin Atalay.
Maintainer: Kircicegi Korkmaz <e102771 at ceng.metu.edu.tr>
Citation (from within R,
enter citation("ibh")):
Installation
To install this package, start R and enter:
source("http://bioconductor.org/biocLite.R")
biocLite("ibh")
Documentation
To view documentation for the version of this package installed in your system, start R and enter:
browseVignettes("ibh")
| R Script | ibh | |
| Reference Manual |
Details
| biocViews | DataImport, GraphAndNetwork, NetworkEnrichment, QualityControl, Software |
| Version | 1.14.0 |
| In Bioconductor since | BioC 2.8 (R-2.13) |
| License | GPL (>= 2) |
| Depends | simpIntLists |
| Imports | |
| LinkingTo | |
| Suggests | yeastCC, stats |
| 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.
| Package Source | ibh_1.14.0.tar.gz |
| Windows Binary | ibh_1.14.0.zip |
| Mac OS X 10.6 (Snow Leopard) | ibh_1.14.0.tgz |
| Mac OS X 10.9 (Mavericks) | ibh_1.14.0.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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