To install this package, start R and enter:
## try http:// if https:// URLs are not supported source("https://bioconductor.org/biocLite.R") biocLite("ASSIGN")
In most cases, you don't need to download the package archive at all.
Bioconductor version: Release (3.5)
ASSIGN is a computational tool to evaluate the pathway deregulation/activation status in individual patient samples. ASSIGN employs a flexible Bayesian factor analysis approach that adapts predetermined pathway signatures derived either from knowledge-based literatures or from perturbation experiments to the cell-/tissue-specific pathway signatures. The deregulation/activation level of each context-specific pathway is quantified to a score, which represents the extent to which a patient sample encompasses the pathway deregulation/activation signature.
Author: Ying Shen, Andrea H. Bild, W. Evan Johnson, and Mumtehena Rahman
Maintainer: Ying Shen <yshen3 at bu.edu>, W. Evan Johnson <wej at bu.edu>, David Jenkins <dfj at bu.edu>, Mumtehena Rahman <moom.rahman at utah.edu>
Citation (from within R,
enter citation("ASSIGN")
):
To install this package, start R and enter:
## try http:// if https:// URLs are not supported source("https://bioconductor.org/biocLite.R") biocLite("ASSIGN")
To view documentation for the version of this package installed in your system, start R and enter:
browseVignettes("ASSIGN")
R Script | Primer | |
Reference Manual | ||
Text | LICENSE |
biocViews | Bayesian, GeneExpression, Pathways, Software |
Version | 1.12.0 |
In Bioconductor since | BioC 2.14 (R-3.1) (3.5 years) |
License | MIT + file LICENSE |
Depends | R (>= 3.2) |
Imports | gplots, graphics, grDevices, msm, Rlab, stats, sva, utils |
LinkingTo | |
Suggests | testthat, BiocStyle |
SystemRequirements | |
Enhances | |
URL | |
Depends On Me | |
Imports Me | |
Suggests Me | |
Build Report |
Follow Installation instructions to use this package in your R session.
Source Package | ASSIGN_1.12.0.tar.gz |
Windows Binary | ASSIGN_1.12.0.zip |
Mac OS X 10.11 (El Capitan) | ASSIGN_1.12.0.tgz |
Source Repository | git clone https://git.bioconductor.org/packages/ASSIGN |
Package Short Url | http://bioconductor.org/packages/ASSIGN/ |
Package Downloads Report | Download Stats |
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