mclusterSim | R Documentation |
Pairwise semantic similarity for a list of gene clusters
mclusterSim(
clusters,
ont = "HDO",
organism = "hsa",
measure = "Wang",
combine = "BMA"
)
clusters |
A list of gene clusters |
ont |
one of "HDO" and "MPO" |
organism |
organism |
measure |
one of "Wang", "Resnik", "Rel", "Jiang", and "Lin". |
combine |
One of "max", "avg", "rcmax", "BMA" methods, for combining semantic similarity scores of multiple DO terms associated with gene/protein. |
similarity matrix
Yu Guangchuang
cluster1 <- c("835", "5261","241")
cluster2 <- c("578","582")
cluster3 <- c("307", "308", "317")
clusters <- list(a=cluster1, b=cluster2, c=cluster3)
mclusterSim(clusters, measure="Wang")
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