\HeaderA{GOstats-package}{Tools for manipulating GO and microarrays.}{GOstats.Rdash.package}
\aliasA{GOstats}{GOstats-package}{GOstats}
\keyword{package}{GOstats-package}
\begin{Description}\relax
A set of tools for interacting with GO and microarray
data. A variety of basic manipulation tools for graphs,
hypothesis testing and other simple calculations.
\end{Description}
\begin{Details}\relax
\Tabular{ll}{
Package: & GOstats\\
Version: & 1.7.4\\
Date: & 23-08-2006\\
biocViews: & Statistics, Annotation, GO, MultipleComparisons\\
Depends: & graph (>= 1.9.25), GO, annotate, RBGL, xtable, Biobase,
genefilter, multtest, Category (>= 1.3.7), methods\\
Imports: & methods, Category\\
Suggests: & hgu95av2 (>= 1.6.0)\\
License: & Artistic\\
}

Index:
\begin{alltt}
ALL                     Acute Lymphoblastic Leukemia Data from the Ritz
                        Laboratory
GOLeaves                Identify the leaves in a GO Graph
GOstats-defunct         Defunct Functions in GOstats Package
Ndists                  Distance matrices for the BCR/ABL and NEG
                        subgroups.
compCorrGraph           A function to compute a correlation based graph
                        from Gene Expression Data
compGdist               A function to compute the distance between
                        pairs of nodes in a graph.
dropECode               Drop GO labels for specified Evidence Codes
getEvidence             Get the Evidence codes for a set of GO terms.
getGOTerm               Functions to Access GO data.
getOntology             Get GO terms for a specified ontology
hasGOannote             Check for GO annotation
hyperG2Affy             A List of Affymetrix IDs from GOIDs
hyperGtable             Table from GOHyperG
idx2dimnames            Index to Dimnames
makeGOGraph             Construct a GO Graph
notConn                 Find genes that are not connected to the
                        others.
oneGOGraph              Construct the GO graph given a set of leaves.
shortestPath            Shortest Path Analysis
simLL                   Functions to compute similarities between GO
                        graphs and also between LocusLink IDs based on
                        their induced GO graphs.
triadCensus             Triad Functions
\end{alltt}

Further information is available in the following vignettes:
\Tabular{ll}{
\code{GOstats} & Using GOstats (source, pdf)\\
\code{GOusage} & Basic GO Usage (source, pdf)\\
\code{GOvis} & Visualizing Data Using GOstats (source, pdf)\\
}
\end{Details}
\begin{Author}\relax
R. Gentleman with contributions from S. Falcon

Maintainer: R. Gentleman <rgentlem@fhcrc.org>
\end{Author}

