name: metabat2_jgisummarizebamcontigdepths description: Depth computation per contig step of metabat2 keywords: - sort - binning - depth - bam - coverage - de novo assembly tools: - metabat2: description: Metagenome binning homepage: https://bitbucket.org/berkeleylab/metabat/src/master/ documentation: https://bitbucket.org/berkeleylab/metabat/src/master/ tool_dev_url: https://bitbucket.org/berkeleylab/metabat/src/master/ doi: "10.7717/peerj.7359" licence: ['BSD-3-clause-LBNL'] input: - meta: type: map description: | Groovy Map containing sample information e.g. [ id:'test', single_end:false ] - bam: type: file description: Sorted BAM file of reads aligned on the assembled contigs pattern: "*.bam" - bai: type: file description: BAM index file pattern: "*.bam.bai" output: - meta: type: map description: | Groovy Map containing sample information e.g. [ id:'test', single_end:false ] - versions: type: file description: File containing software versions pattern: "versions.yml" - depth: type: file description: Text file listing the coverage per contig pattern: ".txt.gz" authors: - "@maxibor"