Das_tool

Introduction

DAS Tool is an automated method that integrates the results of a flexible number of binning algorithms to calculate an optimized, non-redundant set of bins from a single assembly.

For more information, please check:
BioContainers: https://biocontainers.pro/tools/das_tool
Home page: https://github.com/cmks/DAS_Tool

Versions

1.1.6

Commands

DAS_Tool
Contigs2Bin_to_Fasta.sh
Fasta_to_Contig2Bin.sh
get_species_taxids.sh

Module

You can load the modules by:

module load biocontainers
module load das_tool

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 das_tool on our clusters:

#!/bin/bash
#SBATCH -A myallocation     # Allocation name
#SBATCH -t 1:00:00
#SBATCH -N 1
#SBATCH -n 4
#SBATCH --job-name=das_tool
#SBATCH --mail-type=FAIL,BEGIN,END
#SBATCH --error=%x-%J-%u.err
#SBATCH --output=%x-%J-%u.out

module --force purge
ml biocontainers das_tool

DAS_Tool -i sample.human.gut_concoct_contigs2bin.tsv,\
    sample.human.gut_maxbin2_contigs2bin.tsv,\
    sample.human.gut_metabat_contigs2bin.tsv,\
    sample.human.gut_tetraESOM_contigs2bin.tsv \
    -l concoct,maxbin,metabat,tetraESOM \
    -c sample.human.gut_contigs.fa \
    -o DASToolRun2 \
    --proteins DASToolRun1_proteins.faa \
    --write_bin_evals \
    --threads 4 \
    --score_threshold 0.6