To install this package, start R and enter:

## try http:// if https:// URLs are not supported
source("https://bioconductor.org/biocLite.R")
biocLite("safe")

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

safe

This package is for version 2.10 of Bioconductor; for the stable, up-to-date release version, see safe.

Significance Analysis of Function and Expression

Bioconductor version: 2.10

SAFE is a resampling-based method for testing functional categories in gene expression experiments. SAFE can be applied to 2-sample and multi-class comparisons, or simple linear regressions. Other experimental designs can also be accommodated through user-defined functions.

Author: William T. Barry

Maintainer: William T. Barry <bill.barry at duke.edu>

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

Installation

To install this package, start R and enter:

## try http:// if https:// URLs are not supported
source("https://bioconductor.org/biocLite.R")
biocLite("safe")

Documentation

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

browseVignettes("safe")
PDF SAFE manual
PDF Reference Manual

Details

biocViews FunctionalAnnotation, GeneExpression, Software
Version 2.16.0
In Bioconductor since BioC 1.6 (R-2.1) or earlier (> 11 years)
License GPL (>= 2)
Depends R (>= 2.4.0), Biobase, annotate, methods
Imports SparseM, GO.db, annotate, AnnotationDbi, survival, Biobase
LinkingTo
Suggests GO.db, GOstats, Rgraphviz, multtest, hu6800.db, survival
SystemRequirements
Enhances
URL http://www.duke.edu/~dinbarry/SAFE/
Depends On Me
Imports Me
Suggests Me
Build Report

Package Archives

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

Package Source safe_2.16.0.tar.gz
Windows Binary safe_2.16.0.zip
Mac OS X 10.6 (Snow Leopard)
Subversion source (username/password: readonly)
Git source https://github.com/Bioconductor-mirror/safe/tree/release-2.10
Package Short Url http://bioconductor.org/packages/safe/
Package Downloads Report Download Stats

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