tRAX

Introduction

tRAX (tRNA Analysis of eXpression) is a software package built for in-depth analyses of tRNA-derived small RNAs (tDRs), mature tRNAs, and inference of RNA modifications from high-throughput small RNA sequencing data.

For more information, please check its | Docker hub: https://hub.docker.com/r/ucsclowelab/trax and its home page on Github.

Versions

  • 1.0.0

Commands

  • TestRun.bash

  • quickdb.bash

  • maketrnadb.py

  • trimadapters.py

  • processamples.py

Module

You can load the modules by:

module load biocontainers
module load trax

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 tRAX on our clusters:

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

module --force purge
ml biocontainers trax