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geneoverlap

R package for testing and visualizing gene overlaps

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Version

Version

1.8.0

License

GPL-3

Maintainer

Li Shen

Last Published

February 15th, 2017

Functions in GeneOverlap (1.8.0)

GeneOverlapMatrix

Matrix representation of the pairwise overlaps between two gene sets
GeneOverlap

Test overlap between two gene lists using Fisher's exact test.
hESC.RNASeq.list

RNA-seq gene lists
getList

Accessors for the "listA" and "listB" slots of GeneOverlap class
gs.RNASeq

Genome size based on RNA-seq data
hESC.ChIPSeq.list

ChIP-seq gene lists
newGeneOverlap

Constructor for the GeneOverlap class
newGOM

Constructor for the GeneOverlapMatrix class
getReadonlyMatrix

Read-only accessors for the various slots of the GeneOverlapMatrix class
GeneOverlap-package

Test and visualize overlaps between gene lists
drawHeatmap

Visualize GeneOverlapMatrix objects as heatmaps
getReadonly

Read-only accessors for the "intersection", "union", "is.tested", "cont.tbl", "pval", "odds.ratio", "Jaccard" slots of the GeneOverlap class
getGenomeSize

Accessors for the "genome.size" slot of the GeneOverlap class
testGeneOverlap

Test function for the GeneOverlap class