4.48. merge_metagenomics

Combine metagenomic reports from single samples into an aggregate report.

4.48.1. Inputs

4.48.1.1. Required inputs

merge_metagenomics.krakenuniq_summary_reports
Array[File] — Default: None
???

merge_metagenomics.krona_per_sample
Array[File] — Default: None
???

4.48.1.2. Other inputs

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merge_metagenomics.aggregate_metagenomics_reports.aggregate_taxlevel_focus
String — Default: "species"
species,genus,family,order,class,phylum,kingdom,superkingdom

merge_metagenomics.aggregate_metagenomics_reports.aggregate_taxon_heading_space_separated
String — Default: "Viruses"
The taxonomic heading to analyze. More than one can be specified.

merge_metagenomics.aggregate_metagenomics_reports.aggregate_top_N_hits
Int — Default: 5
only include the top N hits from a given sample in the aggregate report

merge_metagenomics.aggregate_metagenomics_reports.docker
String — Default: "quay.io/broadinstitute/viral-classify:2.1.33.0"
???

merge_metagenomics.krona_merge.docker
String — Default: "biocontainers/krona:v2.7.1_cv1"
???

merge_metagenomics.krona_merge.machine_mem_gb
Int? — Default: None
???

4.48.2. Outputs

merge_metagenomics.krona_merged
File
???

merge_metagenomics.metagenomics_summary
File
???

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