AAmotifAlignment {motifStack} | R Documentation

## align AA motifs

### Description

align AA motifs for plotting motifs stack

### Usage

    AAmotifAlignment(pcms, threshold = 0.4, minimalConsensus = 0)

### Arguments

`pcms` | a list of position frequency matrices, pfms must be a list of class pcm
`threshold` | information content cutoff threshold for useful postions
`minimalConsensus` | minimal length of consensus for alignment

### Value

a list of aligned motifs

### Examples

    pcms<-importMatrix(system.file("extdata", "prot.meme", package="motifStack"),
                       format="meme", to="pfm")
    motifs<-AAmotifAlignment(pcms)

[Package motifStack version 1.34.0 Index]