run_fastqc: QC report for each fastq files using FastQC
In uc-bd2k/GREP2: GEO RNA-Seq Experiments Processing Pipeline

run_fastqc HTML report of each fastq files using FastQC. You need to install FastQC from https://www.bioinformatics.babraham.ac.uk/projects/fastqc/

1	run_fastqc(destdir, fastq_dir, n_thread)

`destdir`	directory where all the results will be saved.
`fastq_dir`	directory of the fastq files.
`n_thread`	number of cores to use.

HTML report of the fastq files under fastqc directory.

fastq_dir=system.file("extdata","", package="GREP2")

run_fastqc(destdir=tempdir(),fastq_dir=fastq_dir,
n_thread=2)

uc-bd2k/GREP2 documentation built on Oct. 29, 2019, 5:15 a.m.

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README.md

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