compare2profiles {motifStack} | R Documentation |
compare two pcm object
compare2profiles( pcm1, pcm2, method = c("Smith-Waterman", "Needleman-Wunsch"), pseudo = 1 )
pcm1, pcm2 |
object of pcm |
method |
Alignment method. "Smith-Waterman" or "Needleman-Wunsch". Default is "Smith-Waterma" |
pseudo |
pseudocount |
a list with names: motif1, motif2, alignmentScore, startPos1, startPos2, endPos1, endPos2, alignmentLength.