cutadapt
Link to section 'Description' of 'cutadapt' Description
Cutadapt finds and removes adapter sequences, primers, poly-A tails and other types of unwanted sequence from your high-throughput sequencing reads.
Link to section 'Versions' of 'cutadapt' Versions
- Anvil: 2.10, 3.4, 3.7
- Bell: 3.4, 3.7
- Negishi: 3.4, 3.7
- Scholar: 3.4, 3.7
- Gautschi: 3.4, 3.7
Link to section 'Module' of 'cutadapt' Module
You can load the modules by:
module load cutadapt
Link to section 'Example job' of 'cutadapt' Example job
To run Cutadapt on our clusters:
#!/bin/bash
#SBATCH -A myallocation # Allocation name
#SBATCH -t 1:00:00
#SBATCH -N 1
#SBATCH -n 1
#SBATCH --job-name=cutadapt
#SBATCH --mail-type=FAIL,BEGIN,END
#SBATCH --error=%x-%J-%u.err
#SBATCH --output=%x-%J-%u.out
module load cutadapt
cutadapt -a AACCGGTT -o output.fastq input.fastq