check_encoding {FastqCleaner} | R Documentation

## Check quality encoding

### Description

Check quality encoding

### Usage

    check_encoding(x = NULL, custom = NULL)

### Arguments

`x` | Quality values
`custom` | custom encoding from the following: 'Sanger' ——–> expected range: [0, 40] 'Illumina1.8' ——–> expected range: [0, 41] 'Illumina1.5' ——–> expected range: [0, 40] 'Illumina1.3' ——–> expected range: [3, 40] 'Solexa' ——–> expected range: [-5, 40]

### Value

List with encoding information

### Author(s)

Leandro Roser learoser@gmail.com

### Examples

    require(Biostrings)

    x <- list(PhredQuality(0:40), SolexaQuality(-5:40), IlluminaQuality(3:40))
    x <- lapply(x, function(i)utf8ToInt(as.character(i)[1]))
    lapply(x, check_encoding)

    SolexaQuality(0:40)
    IlluminaQuality(0:40)

[Package FastqCleaner version 1.4.0 Index]