Gene Set Variation Analysis for Microarray and RNA-Seq Data

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Documentation for package ‘GSVA’ version 2.1.8

• DESCRIPTION file.
• User guides, package vignettes and other documentation.
• Package NEWS.

Help Pages

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