scoreDist {motifcounter} | R Documentation |
This function computes the score distribution for the given PFM and background. The Score distribution is computed based on an efficient dynamic programming algorithm.
scoreDist(pfm, bg)
pfm |
An R matrix that represents a position frequency matrix |
bg |
A Background object |
List that contains
Vector of scores
Score distribution
# Load sequences seqfile = system.file("extdata", "seq.fasta", package = "motifcounter") seqs = Biostrings::readDNAStringSet(seqfile) # Load background bg = readBackground(seqs, 1) # Load motif motiffile = system.file("extdata", "x31.tab", package = "motifcounter") motif = t(as.matrix(read.table(motiffile))) # Compute the score distribution dp = scoreDist(motif, bg)