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 1.10.0 Index]