weightedConsensusMatrix {girafe} | R Documentation

## compute weighted consensus matrix

### Description

computes weighted consensus matrix

### Usage

    weightedConsensusMatrix(seqs, weights, shift = NULL,
                            baseLetters = c("A", "C", "G", "T", "N"))

### Arguments

`seqs` | character vector of read sequences
`weights` | integer; weights (read counts)
`shift` | integer; shift of each read sequence relative to the first column of the consensus matrix, by default: 0
`baseLetters` | alphabet

### Value

A consensus matrix

### Author(s)

J Toedling

### See Also

`consensusMatrix`

### Examples

     ## Align following sequences with weights:
     ##   ACATT       1
     ##    CGTTA     10
     ##     TTG       3
     ##  GACATT       4

     dweights <- c(1L, 10L, 3L, 4L)
     d <- c("ACATT","CGTTA", "TTG", "GACATT")
     dshifts <- c(0L, 1L, 2L, -1L)
     W <- girafe:::weightedConsensusMatrix(d, dweights, shift=dshifts)
     consensusString(W, ambiguityMap="N")

[Package girafe version 1.40.0 Index]