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To install this package, start R and enter:
## try http if https is not available
source("https://bioconductor.org/biocLite.R")
biocLite("pathifier")
In most cases, you don't need to download the package archive at all.
pathifier
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Quantify deregulation of pathways in cancer
Bioconductor version: Release (3.1)
Pathifier is an algorithm that infers pathway deregulation scores for each tumor sample on the basis of expression data. This score is determined, in a context-specific manner, for every particular dataset and type of cancer that is being investigated. The algorithm transforms gene-level information into pathway-level information, generating a compact and biologically relevant representation of each sample.
Author: Yotam Drier
Maintainer: Assif Yitzhaky <assif.yitzhaky at weizmann.ac.il>
Citation (from within R,
enter citation("pathifier")):
Installation
To install this package, start R and enter:
## try http if https is not available
source("https://bioconductor.org/biocLite.R")
biocLite("pathifier")
Documentation
To view documentation for the version of this package installed in your system, start R and enter:
browseVignettes("pathifier")
| R Script | Quantify deregulation of pathways in cancer | |
| Reference Manual |
Details
| biocViews | Network, Software |
| Version | 1.6.0 |
| In Bioconductor since | BioC 2.13 (R-3.0) (2 years) |
| License | Artistic-1.0 |
| Depends | |
| Imports | R.oo, princurve |
| LinkingTo | |
| Suggests | |
| 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 | pathifier_1.6.0.tar.gz |
| Windows Binary | pathifier_1.6.0.zip |
| Mac OS X 10.6 (Snow Leopard) | pathifier_1.6.0.tgz |
| Mac OS X 10.9 (Mavericks) | pathifier_1.6.0.tgz |
| Subversion source | (username/password: readonly) |
| Git source | https://github.com/Bioconductor-mirror/pathifier/tree/release-3.1 |
| Package Short Url | http://bioconductor.org/packages/pathifier/ |
| Package Downloads Report | Download Stats |
Documentation »
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