per_base_quality {qckitfastq} | R Documentation

## Compute the mean, median, and percentiles of quality score per base. This is returned as a data frame.

### Description

Compute the mean, median, and percentiles of quality score per base. This is returned as a data frame.

### Usage

    per_base_quality(infile, output_file = NA)

### Arguments

`infile` | Path to a gzippped FASTQ file
`output_file` | File to write results in CSV format to. Default NA.

### Value

A dataframe of the mean, median and quantiles of the FASTQ file

### Author(s)

Wenyue Xing, wenyue_xing@brown.edu

August Guang, august_guang@brown.edu

### Examples

    per_base_quality(system.file("extdata", "10^5_reads_test.fq.gz",
        package = "qckitfastq"))

[Package qckitfastq version 1.4.0 Index]