cleanPeptides {dagLogo} | R Documentation

## clean up peptides

### Description

clean up the input peptide subsequences. The function removes peptides which do NOT contain any anchoring amino acid. Adds peptide for each additional anchor in each peptide, and allows multiple anchoring amino acids.

### Usage

    cleanPeptides(dat, anchors)

### Arguments

`dat` | input data. The input dat contains two columns 'symbol', protein ID, and 'peptides', peptide sequence.The anchoring amino acid must be in lower case.
`anchors` | A vector of character, anchoring amino acid must be in lower case.

### Value

A data.frame with columns: 'symbol', 'peptides' and 'anchor'

### Author(s)

Jianhong Ou, Julie Zhu

### Examples

    dat <- read.csv(system.file("extdata", "peptides2filter.csv", package="dagLogo"))
    dat
    dat.new <- cleanPeptides(dat, anchors = c("s", "t"))

[Package dagLogo version 1.25.0 Index]