CheckM2

note

A rapid, scalable and accurate tool for assessing microbial genome quality using machine learning

https://github.com/chklovski/CheckM2

The module parses the quality_report.tsv files generated by CheckM2. All statistics for all samples are saved to multiqc_data/checkm2-first-table.txt.

This has been tested with CheckM2 v1.0.2 .

File search patterns

checkm2:
  contents: "Name\tCompleteness\tContamination\tCompleteness_Model_Used\tTranslation_Table_Used\t\
    Coding_Density\tContig_N50\tAverage_Gene_Length\tGenome_Size\tGC_Content\tTotal_Coding_Sequences\t\
    Total_Contigs\tMax_Contig_Length"
  num_lines: 10