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MetaBat2

⚠️ NOTE This software will only run on AVX2 or newer nodes. Use --constraint extension_avx2 or --constraint extension_avx512 in your job submission request.

MetaBat2 uses a statistical framework to reconstruct metagenomes from metagenomic sequencing data. Please see the source page, listed below, for more information.

Using the module​

To load MetaBat2 in an interactive session on Palmetto:

module load biocontainers
module load metabat2

After loading the biocontainers module, you can see the available commands by running:

report_subtools.sh metabat2

Example​

Using test data from the MetaBat2 website, an example command is shown below:

runMetaBat.sh -t $SLURM_CPUS_ON_NODE contigs.fa contigs-1000.fastq.bam
tip

metabat2, metabat1, and metabat use multithreading! Please specify your available resources or the software may try to use more threads than your job requested and cause it to fail. To control the number of threads, remember to set the -t or --numThreads flag accordingly!

Please see MetaBat2 source page for more information.

Parallel Capabilities: All cores default.