read_quality_report: read_quality_report

Description Usage Arguments Value

View source: R/read_quality_report.R

Description

Processes fastq files to look at read counts, read lengths, and at what read cycle the quality drops below the q quality threshold.

Usage

1
read_quality_report(path, q = 20, k = 3, n = 5e+06, cores = 1)

Arguments

path

File path(s) to fastq or fastq.gz file(s).

q

Quality score cutoff for the read. Will look at the mean average score for k bases beyond where the potential read length cutoff would be recommended.

k

number of bases beyond the current to consider for quality cutoff.

n

The number of records to sample from the fastq file.

cores

The number of CPU cores/threads to use.

Value

data.table


schuyler-smith/simple.dada documentation built on Jan. 28, 2020, 8:32 a.m.