Compute pairwise alteration co-occurrence counts

Compute pairwise alteration co-occurrence counts

Usage

am.pairwise.alteration.overlap(am)

Arguments

am

Binary alteration matrix (features x samples)

Value

Square matrix of pairwise co-occurrence counts (features x features).

Examples

am <- matrix(c(0,1,1,0,1,1), nrow = 2,
             dimnames = list(c("geneA","geneB"), c("s1","s2","s3")))
am.pairwise.alteration.overlap(am)
#>       geneA geneB
#> geneA     2     1
#> geneB     1     2