Minnesota Supercomputing Institute
0.11.7
0.11.2, 0.11.5, 0.11.7, 0.11.8, 0.11.9
Tuesday, August 29, 2023
FastQC aims to provide a simple way to do some quality control checks on raw sequence data coming from high throughput sequencing pipelines. It provides a modular set of analyses which you can use to give a quick impression of whether your data has any problems of which you should be aware before doing any further analysis.
To run this software interactively in a Linux environment run the commands:
module load fastqc fastqc
FastQC can also be run from the command line. For a list of options, type the command:
fastqc -help
#!/bin/bash #SBATCH --job-name="rfm_RunFASTQCTest_job" #SBATCH --ntasks=1 #SBATCH --ntasks-per-node=1 #SBATCH --output=rfm_RunFASTQCTest_job.out #SBATCH --error=rfm_RunFASTQCTest_job.err #SBATCH --time=0:10:0 #SBATCH -p small,large,ram256g,ram1t module load fastqc/0.11.7 fastqc r1.fq r2.fq