bioinfo_benchmarker_one

Runs illumina NGS QC and mapping

This pipeline runs a parallel NF pipeline to run fastqc on 94 fastq.gz files

each fastq.gz file contains 50,000 reads from sample SRR13516428_2.fastq

The pipeline is meant to be used to compare speed in different hardware envs. Mainly, this will help me to make recommendations about new laptops for students.

• Software Prerequisites

Software:

Requirement	Version	Required Commands *
Nextflow	21.10.5.5658	nextflow

Additional Requirements

(if you want to run as docker)

-Docker latest as of July 2021 -That your user is added to the docker group

Install and Quick Run

git clone https://github.com/Iaguilaror/nf-bioinfo_benchmarker_one
cd nf-bioinfo_benchmarker_one/
bash runtest.sh

TO-DO

• Develop mapping module

Authors

• Israel Aguilar - Design and Full Dev.