scaleScoreMatrix {genomation} | R Documentation |
Scales the values in the matrix by rows and/or columns
scaleScoreMatrix(mat, columns = FALSE, rows = TRUE, scalefun = NULL) ## S4 method for signature 'ScoreMatrix' scaleScoreMatrix(mat, columns = FALSE, rows = TRUE, scalefun = NULL)
mat |
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columns |
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rows |
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scalefun |
function object that takes as input a matrix and returns a matrix. By default the argument is set to (x - mean(x))/(max(x)-min(x)+1) |
ScoreMatrix
object
# scale the rows of a scoreMatrix object library(GenomicRanges) target = GRanges(rep(c(1,2),each=7), IRanges(rep(c(1,1,2,3,7,8,9), times=2), width=5), weight = rep(c(1,2),each=7), strand=c('-', '-', '-', '-', '+', '-', '+', '-', '-', '-', '-', '-', '-', '+')) windows = GRanges(rep(c(1,2),each=2), IRanges(rep(c(1,2), times=2), width=5), strand=c('-','+','-','+')) sm = ScoreMatrix(target, windows) ssm = scaleScoreMatrix(sm, rows=TRUE)