Trnascan-se

Introduction

Trnascan-se is a convenient, ready-for-use means to identify tRNA genes in one or more query sequences.

For more information, please check its website: https://biocontainers.pro/tools/trnascan-se and its home page: http://lowelab.ucsc.edu/tRNAscan-SE/.

Versions

• 2.0.9

Commands

• tRNAscan-SE

Module

You can load the modules by:

module load biocontainers
module load trnascan-se

Example job

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 Trnascan-se on our clusters:

#!/bin/bash
#SBATCH -A myallocation     # Allocation name
#SBATCH -t 1:00:00
#SBATCH -N 1
#SBATCH -n 12
#SBATCH --job-name=trnascan-se
#SBATCH --mail-type=FAIL,BEGIN,END
#SBATCH --error=%x-%J-%u.err
#SBATCH --output=%x-%J-%u.out

module --force purge
ml biocontainers trnascan-se

tRNAscan-SE --thread 12 -o tRNA.out \
    -f rRNA.ss -m tRNA.stats genome.fasta