compare2profiles {motifStack} | R Documentation

## compare two profiles

### Description

compare two pcm object

### Usage

    compare2profiles(
      pcm1,
      pcm2,
      method = c("Smith-Waterman", "Needleman-Wunsch"),
      pseudo = 1
    )

### Arguments

`pcm1, pcm2` | object of pcm
`method` | Alignment method. "Smith-Waterman" or "Needleman-Wunsch". Default is "Smith-Waterma"
`pseudo` | pseudocount

### Value

a list with names: motif1, motif2, alignmentScore, startPos1, startPos2, endPos1, endPos2, alignmentLength.

[Package motifStack version 1.36.1 Index]