tiara
Link to section 'Introduction' of 'tiara' Introduction
Tiara
is a deep-learning-based approach for identification of eukaryotic sequences in the metagenomic data powered by PyTorch.
Docker hub: https://hub.docker.com/r/zhan4429/tiara and its home page on Github.
Link to section 'Versions' of 'tiara' Versions
- 1.0.2
Link to section 'Commands' of 'tiara' Commands
- tiara
Link to section 'Module' of 'tiara' Module
You can load the modules by:
module load biocontainers
module load tiara
Link to section 'Example job' of 'tiara' Example job
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