bowtie2
Link to section 'Description' of 'bowtie2' Description
Bowtie 2 is an ultrafast and memory-efficient tool for aligning sequencing reads to long reference sequences
Link to section 'Versions' of 'bowtie2' Versions
- Anvil: 2.4.2
Link to section 'Module' of 'bowtie2' Module
You can load the modules by:
module load bowtie2
Link to section 'Example job' of 'bowtie2' Example job
To run Bowtie 2 on our clusters:
#!/bin/bash
#SBATCH -A myallocation # Allocation name
#SBATCH -t 1:00:00
#SBATCH -N 1
#SBATCH -n 1
#SBATCH --job-name=bowtie2
#SBATCH --mail-type=FAIL,BEGIN,END
#SBATCH --error=%x-%J-%u.err
#SBATCH --output=%x-%J-%u.out
module load bowtie2
bowtie2-build ref.fasta ref
bowtie2 -p 4 -x ref -1 input_1.fq -2 input_2.fq -S test.sam