Bai_data                Bai et al. Data Sets.
GSNData                 GSNData
buildGeneSetNetworkGeneric
                        buildGeneSetNetworkGeneric
buildGeneSetNetworkJaccard
                        buildGeneSetNetworkJaccard
buildGeneSetNetworkLF   buildGeneSetNetworkLF,
                        buildGeneSetNetworkLFFast-deprecated
buildGeneSetNetworkOC   buildGeneSetNetworkOC
buildGeneSetNetworkSTLF
                        buildGeneSetNetworkSTLF
color2IntV              color2IntV
combineRGBMatrices      combineRGBMatrices
complement              complement
contrasting_color       contrasting_color
distMat2Rank            distMat2Rank
distMat2UnitNormRank    distMat2UnitNormRank negDistMat2UnitNormRank
extract_david_GSC       extract_david_GSC
gsIntersect             gsIntersect
gsIntersectCounts       gsIntersectCounts
gsc2tmod                gsc2tmod
gsnAddPathwaysData      gsnAddPathwaysData
gsnAssignSubnets        gsnAssignSubnets
gsnDendroSubnetColors   gsnDendroSubnetColors,
                        gsnDendroSubnetColors_dark
gsnDistanceHistogram    gsnDistanceHistogram
gsnFilterGeneSetCollectionList
                        gsnFilterGeneSetCollectionList
gsnHierarchicalDendrogram
                        gsnHierarchicalDendrogram
gsnImportCERNO          gsnImportCERNO
gsnImportDAVID          gsnImportDAVID
gsnImportGSEA           gsnImportGSEA
gsnImportGSNORA         gsnImportGSNORA
gsnImportGenericPathways
                        gsnImportGenericPathways
gsnMergePathways        gsnMergePathways
gsnORAtest              gsnORAtest
gsnORAtest_cpp          gsnORAtest_cpp
gsnPareNetGenericHierarchic
                        gsnPareNetGenericHierarchic
gsnPareNetGenericToNearestNNeighbors
                        gsnPareNetGenericToNearestNNeighbors
gsnParedVsRawDistancePlot
                        gsnParedVsRawDistancePlot
gsnPlotNetwork          gsnPlotNetwork
gsnSubnetSummary        gsnSubnetSummary
gsnSubset               gsnSubset
gsnToIgraph             gsnToIgraph
gsn_default_distance    gsn_default_distance, gsn_distances, pw_id_col,
                        pw_stat_col, pw_sig_order, pw_stat_col_2,
                        pw_sig_order_2, pw_n_col, pw_type
intV2Color              intV2Color
lfisher_cpp             lfisher_cpp
lse                     lse
makeFilteredGenePresenceAbsenceMatrix
                        makeFilteredGenePresenceAbsenceMatrix
makeLinearNColorGradientFunction
                        makeLinearNColorGradientFunction
makeOneColorEncodeFunction
                        makeOneColorEncodeFunction
makeSymmetricDist       makeSymmetricDist
makeTwoColorEncodeFunction
                        makeTwoColorEncodeFunction
negative                negative
nzLog10                 nzLog10
nzLog10.old             nzLog10.old
pick_MappedGeneSymbol   pick_MappedGeneSymbol
plot.GSNData            plot plot.GSNData
print.GSNData           print.GSNData
read_david_data_file    read_david_data_file
read_gmt                read_gmt
scoreJaccardMatrix_C    scoreJaccardMatrix_C
scoreLFMatrix_C         scoreLFMatrix_C
scoreOCMatrix_C         scoreOCMatrix_C
tmod2gsc                tmod2gsc
write_gmt               write_gmt
yassifyPathways         yassifyPathways
