Man pages for aiminy/GOSJ
A R package for GO term enrichment analysis with the flexible bias factor adjustment

callQoRTUse QoRTs to get the count of subfeatures in each gene
Combine3ReCombine3Re
CombineCpTftGoGeneIDCombineCpTftGoGeneID
CompareDEfromGeneWithDEfromFeaturesCompareDEfromGeneWithDEfromFeatures
CompareGOResultsCompareGOResults
Draw4CatDraw4Cat
Draw4GODraw4GO
DrawFeatureDrawFeature
ExtractGeneIDFromGoExtractGeneIDFromGo
FDR_genewiseTitle
gene2catgene2cat
gene2cat2gene2cat2
GeneBasedAnalysisGeneBasedAnalysis
GenerateGeneAnnoGenerate gene annotations based on the Ensembl ID of genes
GeneWisePvsExonWisePCompare gene based p value with exon based p value
GetCCBetweenMostSigPadjustSJTitle
getDatasetcodes for simulation and plot PWF simulation code from...
GetDesignTitle
getgo#############################################################################...
getgo3Title
GetMgiSymbolDescriptionTitle
GetMgiSymbolUsingLocalDataBaseTitle
Get_Over_under_represented_pvaluecalculate the p-value for GO terms
GetPwfUseReformatedDataGetPwfUseReformatedData
GetResults4GeneLevelGetResults4GeneLevel
GetResultsFromJunctionSeqGet analysis results using JunctionSeq
Gmt2GeneCatGmt2GeneCat
goseq2goseq2
GotermAnalysis2GetAllGOTerms_AdjustedByNumOfJunctionWithinOneGeneThis function is to subset data set based on feature
GotermAnalysisUseFeatureDefineDEGotermAnalysisUseFeatureDefineDE
GotermAnalysisUseReformatedDataGotermAnalysisUseReformatedData
GSA.read.gmt.2GSA.read.gmt.2
JS.perGeneQValueJS.perGeneQValue
JS.perGeneQValueExactJS.perGeneQValueExact
JS.perGeneQValueExact.testTitle
LabelGeneBasedFeatureLabelGeneBasedFeature
list_to_dfTitle
makeGeneWiseTableThis function is to generate the gene-based results
NBsimGenerate simulated count based on NB distribution
OuputGOOutputGO
OutputCatBasedPwfOutputCatBasedPwf
OutputFigureTitle
OutputGeneWiseTableTitle
OutputGOBasedDEfromFeaturesOutputGOBasedDEfromFeatures
OutputGOBasedDEfromFeatures2OutputGOBasedDEfromFeatures2
OutputGOBasedDEfromFeatures3OutputGOBasedDEfromFeatures3
PermutattionOfRawDataTitle
plotPWF2Plot the probability Weighting Function
ProcessCuffLinkResultsProcessCuffLinkResults
ProcessOutputFilesFrom_rMATSProcessOutputFilesFrom_rMATS
readJunctionSeqCountsTitle
ReformatDataTitle
ReformatDataUseTableReformatDataUseTable
reversemappingTitle
Select_DE_gene_basd_on_FeatureSelect_DE_gene_based_on_Feature
SelectFeatureSelectFeature
SimulationSJ2DESimulate gene sets based on the number of splicing junctions
UseLogistic2_adDETitle
UseLogistic2CKBiasTitle
UseOtherDataSetTitle
aiminy/GOSJ documentation built on Nov. 29, 2017, 4:12 a.m.