fastqcr (version 0.1.2)

fastqc: Run FastQC Tool

Description

Run FastQC Tool

Usage

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

Value

Create a directory containing the reports

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

Examples

if (FALSE) {
# Run FastQC: generates a QC directory
fastqc(fq.dir)
}