Tiara

Introduction

Tiara is a deep-learning-based approach for identification of eukaryotic sequences in the metagenomic data powered by PyTorch.

For more information, please check its | Docker hub: https://hub.docker.com/r/zhan4429/tiara and its home page on Github.

Versions

• 1.0.2

Commands

• tiara

Module

You can load the modules by:

module load biocontainers
module load tiara

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 Tiara on our clusters:

#!/bin/bash
#SBATCH -A myallocation     # Allocation name
#SBATCH -t 1:00:00
#SBATCH -N 1
#SBATCH -n 24
#SBATCH --job-name=tiara
#SBATCH --mail-type=FAIL,BEGIN,END
#SBATCH --error=%x-%J-%u.err
#SBATCH --output=%x-%J-%u.out

module --force purge
ml biocontainers tiara

tiara -t 24 -i archaea_fr.fasta -o archaea_out.txt
tiara -t 24 -i bacteria_fr.fasta -o bacteria_out.txt
tiara -t 24 -i eukarya_fr.fasta -o eukarya_out.txt
tiara -t 24 -i mitochondria_fr.fasta -o mitochondria_out.txt
tiara -t 24  -i plast_fr.fasta -o plast_out.txt
tiara -t 24  -i total.fasta -o mix_out.txt  --tf all  -p 0.65 0.60 --probabilities