Entry: GOHyperG
Aliases: GOHyperG
Keywords: htest
Description: (DEPRECATED) Hypergeometric Tests for GO
URL: ../../../library/GOstats/html/GOHyperG.html

Entry: GOHyperGResult-class
Aliases: GOHyperGResult-class geneCounts,GOHyperGResult-method goDag goDag,GOHyperGResult-method oddsRatios,GOHyperGResult-method expectedCounts,GOHyperGResult-method pvalues,GOHyperGResult-method geneIdUniverse,GOHyperGResult-method condGeneIdUniverse,GOHyperGResult-method htmlReport,GOHyperGResult-method summary,GOHyperGResult-method conditional,GOHyperGResult-method isConditional,GOHyperGResult-method selectedGenes
Keywords: classes
Description: Class "GOHyperGResult"
URL: ../../../library/GOstats/html/GOHyperGResult-class.html

Entry: GOLeaves
Aliases: GOLeaves
Keywords: manip
Description: DEPRECATED Identify the leaves in a GO Graph
URL: ../../../library/GOstats/html/GOLeaves.html

Entry: GOstats-defunct
Aliases: GOstats-defunct combGOGraph hyperGtable hyperG2Affy
Keywords: manip
Description: Defunct Functions in GOstats Package
URL: ../../../library/GOstats/html/GOstats-defunct.html

Entry: GOstats-package
Aliases: GOstats-package GOstats
Keywords: package
Description: Tools for manipulating GO and microarrays.
URL: ../../../library/GOstats/html/GOstats-package.html

Entry: Ndists
Aliases: Ndists Bdists
Keywords: datasets
Description: Distance matrices for the BCR/ABL and NEG subgroups.
URL: ../../../library/GOstats/html/Ndists.html

Entry: compCorrGraph
Aliases: compCorrGraph
Keywords: manip
Description: A function to compute a correlation based graph from Gene Expression Data
URL: ../../../library/GOstats/html/compCorrGraph.html

Entry: compGdist
Aliases: compGdist
Keywords: manip
Description: A function to compute the distance between pairs of nodes in a graph.
URL: ../../../library/GOstats/html/compGdist.html

Entry: hyperGTest
Aliases: hyperGTest hyperGTest,GOHyperGParams-method
Keywords: models
Description: Hypergeometric Tests for GO term association
URL: ../../../library/GOstats/html/hyperGTest.html

Entry: idx2dimnames
Aliases: idx2dimnames
Keywords: manip
Description: Index to Dimnames
URL: ../../../library/GOstats/html/idx2dimnames.html

Entry: makeGOGraph
Aliases: makeGOGraph
Keywords: manip
Description: Construct a GO Graph
URL: ../../../library/GOstats/html/makeGOGraph.html

Entry: notConn
Aliases: notConn
Keywords: manip
Description: Find genes that are not connected to the others.
URL: ../../../library/GOstats/html/notConn.html

Entry: oneGOGraph
Aliases: oneGOGraph GOGraph getGoGraph getGoGraph,GOHyperGParams,character-method
Keywords: manip
Description: Construct the GO graph given a set of leaves.
URL: ../../../library/GOstats/html/oneGOGraph.html

Entry: probeSetSummary
Aliases: probeSetSummary
Keywords: manip htest
Description: Summarize Probe Sets Associated with a hyperGTest Result
URL: ../../../library/GOstats/html/probeSetSummary.html

Entry: shortestPath
Aliases: shortestPath
Keywords: manip
Description: Shortest Path Analysis
URL: ../../../library/GOstats/html/shortestPath.html

Entry: simLL
Aliases: simLL simUI simLP
Keywords: manip
Description: Functions to compute similarities between GO graphs and also between Entrez Gene IDs based on their induced GO graphs.
URL: ../../../library/GOstats/html/simLL.html

Entry: termGraphs
Aliases: termGraphs inducedTermGraph plotGOTermGraph
Keywords: manip
Description: Extraction and Plotting of GO Terms from a GOHyperGResult Object
URL: ../../../library/GOstats/html/termGraphs.html

Entry: triadCensus
Aliases: triadCensus triad enumPairs isTriad reduce2Degreek
Keywords: manip
Description: Triad Functions
URL: ../../../library/GOstats/html/triadCensus.html
