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per_base_quality: 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

Argument Description
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

Wenyue Xing, wenyue_xing@brown.edu

August Guang, august_guang@brown.edu

Examples

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