To install this package, start R and enter:

source("http://bioconductor.org/biocLite.R")
biocLite("ASSIGN")

In most cases, you don't need to download the package archive at all.

ASSIGN

Adaptive Signature Selection and InteGratioN (ASSIGN)

Bioconductor version: Release (2.14)

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, and W. Evan Johnson

Maintainer: Ying Shen <yshen3 at bu.edu>

Citation (from within R, enter citation("ASSIGN")):

Installation

To install this package, start R and enter:

source("http://bioconductor.org/biocLite.R")
biocLite("ASSIGN")

Documentation

To view documentation for the version of this package installed in your system, start R and enter:

browseVignettes("ASSIGN")

 

PDF R Script Primer
PDF   Reference Manual

Details

biocViews Bayesian, GeneExpression, Pathways, Software
Version 1.0.0
In Bioconductor since BioC 2.14 (R-3.1)
License MIT
Depends Rlab, msm, gplots
Imports graphics, grDevices, stats, utils
Suggests
System Requirements
URL
Depends On Me
Imports Me
Suggests Me

Package Archives

Follow Installation instructions to use this package in your R session.

Package Source ASSIGN_1.0.0.tar.gz
Windows Binary ASSIGN_1.0.0.zip (32- & 64-bit)
Mac OS X 10.6 (Snow Leopard) ASSIGN_1.0.0.tgz
Mac OS X 10.9 (Mavericks) ASSIGN_1.0.0.tgz
Browse/checkout source (username/password: readonly)
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