safe

Significance Analysis of Function and Expression

Bioconductor version: 2.8

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>

To install this package, start R and enter:

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

To cite this package in a publication, start R and enter:

    citation("safe")

Documentation

PDF R Script SAFE manual
PDF   Reference Manual

Details

biocViews GeneExpression, FunctionalAnnotation
Depends R (>= 2.4.0), Biobase, annotate, methods
Imports SparseM, GO.db, annotate, AnnotationDbi, survival, Biobase
Suggests GO.db, GOstats, Rgraphviz, multtest, hu6800.db, survival
System Requirements
License GPL (>= 2)
URL http://www.duke.edu/~dinbarry/SAFE/
Depends On Me
Imports Me
Suggests Me
Version 2.12.0
Since Bioconductor 1.6 (R-2.1) or earlier

Package Downloads

Package Source safe_2.12.0.tar.gz
Windows Binary safe_2.12.0.zip (32- & 64-bit)
MacOS 10.5 (Leopard) binary safe_2.12.0.tgz
Package Downloads Report Download Stats

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