Gene Set Variation Analysis for Microarray and RNA-Seq Data


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Documentation for package ‘GSVA’ version 2.0.4

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anyNA-method 'ssgseaParam' class
computeGeneSetsOverlap Compute gene-sets overlap
computeGeneSetsOverlap-method Compute gene-sets overlap
deduplicateGeneSets Handling of Duplicated Gene Set Names
filterGeneSets Filter gene sets
filterGeneSets-method Filter gene sets
geneIdsToGeneSetCollection Construct a GeneSetCollection object from a list of character vectors
geneSets Retrieve or Determine Gene Sets
geneSets-method Retrieve or Determine Gene Sets
geneSets<- 'gsvaParam' class
geneSets<--method 'gsvaParam' class
geneSetSizes Retrieve or Determine Gene Sets
geneSetSizes-method Retrieve or Determine Gene Sets
gsva Gene Set Variation Analysis
gsva-method Gene Set Variation Analysis
gsvaAnnotation Store and Retrieve Annotation Metadata
gsvaAnnotation-method Store and Retrieve Annotation Metadata
gsvaAnnotation<- Store and Retrieve Annotation Metadata
gsvaAnnotation<--method Store and Retrieve Annotation Metadata
gsvaEnrichment GSVA enrichment data and visualization
gsvaEnrichment-method GSVA enrichment data and visualization
GsvaExprData 'GsvaExprData' class
GsvaExprData-class 'GsvaExprData' class
GsvaGeneSets-class 'GsvaGeneSets' class
GsvaMethodParam-class 'GsvaMethodParam' class
gsvaParam 'gsvaParam' class
gsvaParam-class 'gsvaParam' class
gsvaRanks GSVA ranks and scores
gsvaRanks-method GSVA ranks and scores
gsvaRanksParam-class 'gsvaParam' class
gsvaScores GSVA ranks and scores
gsvaScores-method GSVA ranks and scores
guessGeneIdType Guess the gene identifier type from a list of character vectors
igsva Gene Set Variation Analysis
plageParam 'plageParam' class
plageParam-class 'plageParam' class
readGMT Import Gene Sets from a GMT File
spatCor Compute Spatial Autocorrelation for SpatialExperiment objects
spatCor-method Compute Spatial Autocorrelation for SpatialExperiment objects
ssgseaParam 'ssgseaParam' class
ssgseaParam-class 'ssgseaParam' class
zscoreParam 'zscoreParam' class
zscoreParam-class 'zscoreParam' class