fastqc: Run FastQC Tool

Description Usage Arguments Value Examples

View source: R/fastqc.R

Description

Run FastQC Tool

Usage

1
2
fastqc(fq.dir = getwd(), qc.dir = NULL, threads = 4,
  fastqc.path = "~/bin/FastQC/fastqc")

Arguments

fq.dir

path to the directory containing fastq files. Default is the current working directory.

qc.dir

path to the FastQC result directory. If NULL, a directory named fastqc_results is created in the current working directory.

threads

the number of threads to be used. Default is 4.

fastqc.path

path to fastqc program

Value

Create a directory containing the reports

Examples

1
2
3
4
5
## Not run: 
# Run FastQC: generates a QC directory
fastqc(fq.dir)

## End(Not run)

fastqcr documentation built on May 2, 2019, 2:13 a.m.