fastqc: Run FastQC Tool

In alexpiper/seqateurs: Tools for trimming and processing sequence data

Run FastQC Tool

Description

Run FastQC Tool on windows or linux

Usage

fastqc(fq.dir, qc.dir = NULL, threads = 1, fastqc.path = "bin/FastQC/fastqc")

Arguments

fq.dir	(Required) Default is the current working directory. path to the directory containing fastq files.
qc.dir	(Optional) path to the FastQC result directory. If NULL, a directory named FASTQC is created in the current working directory.
threads	(Optional) the number of threads to be used. Default is 1.
fastqc.path	(Required) path to fastqc program

Value

A new directory containing the fastqc reports for each sample

Examples

## Not run: 
# Run FastQC: generates a QC directory
fastqc(fq.dir)

## End(Not run)

alexpiper/seqateurs documentation built on July 9, 2023, 7:21 a.m.