Vsearch
is a versatile open source tool for metagenomics.
For more information, please check its website: https://biocontainers.pro/tools/vsearch and its home page on Github.
- 2.19.0
- 2.21.1
- 2.22.1
- vsearch
You can load the modules by:
module load biocontainers module load vsearch
Warning
Using #!/bin/sh -l
as shebang in the slurm job script will cause the failure of some biocontainer modules. Please use #!/bin/bash
instead.
To run Vsearch on our clusters:
#!/bin/bash #SBATCH -A myallocation # Allocation name #SBATCH -t 1:00:00 #SBATCH -N 1 #SBATCH -n 1 #SBATCH --job-name=vsearch #SBATCH --mail-type=FAIL,BEGIN,END #SBATCH --error=%x-%J-%u.err #SBATCH --output=%x-%J-%u.out module --force purge ml biocontainers vsearch vsearch -sintax SRR8723605_merged.fasta -db rdp_16s_v16_sp.fa \ -tabbedout SRR8723605_out.txt -strand both -sintax_cutoff 0.5