deviationsCovariability

deviationsCovariability

deviationsCovariability(object)

Arguments

object	deviations result

Value

'covariability' matrix

Details

Returns the 'covariability' between motifs/kmers/peaksets. Covariability' is defined as covariance between Z-scores divided by variance of Z-scores for one motif/kmer/peakset (the row).

Examples

# NOT RUN {
# load very small example data
data(mini_counts, package = "chromVAR")
motifs <- getJasparMotifs()
library(motifmatchr)
motif_ix <- matchMotifs(motifs, mini_counts,
  genome = BSgenome.Hsapiens.UCSC.hg19::BSgenome.Hsapiens.UCSC.hg19)

# computing deviations
dev <- computeDeviations(object = mini_counts,
                         annotations = motif_ix)

# get covariability for just first three motifs                         
devcov <- deviationsCovariability(dev[1:3,])
# }