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.
ASSIGN
|
This package is for version 3.4 of Bioconductor; for the stable, up-to-date release version, see ASSIGN.
Adaptive Signature Selection and InteGratioN (ASSIGN)
Bioconductor version: 3.4
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:
## try http:// if https:// URLs are not supported
source("https://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")
| R Script | Primer | |
| Reference Manual |
Details
| biocViews | Bayesian, GeneExpression, Pathways, Software |
| Version | 1.10.0 |
| In Bioconductor since | BioC 2.14 (R-3.1) (3 years) |
| License | MIT |
| Depends | Rlab, msm, gplots |
| Imports | graphics, grDevices, stats, utils |
| 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 | ASSIGN_1.10.0.tar.gz |
| Windows Binary | ASSIGN_1.10.0.zip |
| Mac OS X 10.9 (Mavericks) | ASSIGN_1.10.0.tgz |
| Subversion source | (username/password: readonly) |
| Git source | https://github.com/Bioconductor-mirror/ASSIGN/tree/release-3.4 |
| Package Short Url | http://bioconductor.org/packages/ASSIGN/ |
| Package Downloads Report | Download Stats |
Documentation »
Bioconductor
- Package vignettes and manuals.
- Workflows for learning and use.
- Course and conference material.
- Videos.
- Community resources and tutorials.
R / CRAN packages and documentation
Support »
Please read the posting guide. Post questions about Bioconductor to one of the following locations:
- Support site - for questions about Bioconductor packages
- Bioc-devel mailing list - for package developers
