Significance Analysis of Function and Expression

Bioconductor version: 2.9

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>

To install this package, start R and enter:


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



PDF R Script SAFE manual
PDF   Reference Manual


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)
Depends On Me
Imports Me
Suggests Me
Version 2.14.0
Since Bioconductor 1.6 (R-2.1) or earlier

Package Downloads

Package Source safe_2.14.0.tar.gz
Windows Binary (32- & 64-bit)
MacOS 10.5 (Leopard) binary safe_2.14.0.tgz
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