Merge kmcp profilings of multiple samples

[DrYoungOG]

Thanks for the good software.

I have completed the searching and profiling commands and got profiling results of multiple samples. How to merge these profiling results into one feature table for downstream ayalysis?

Thank you!

[shenwei356]

You can merge them with existing tools, especially those for Metaphlan.

Profiling result formats

Taxonomic profiling output formats:

• KMCP (-o/--out-file). Note that: abundances are only computed for target references rather than each taxon at all taxonomic ranks, so please output CAMI or MetaPhlAn format.
• CAMI (-M/--metaphlan-report, --metaphlan-report-version, sample name: -s/--sample-id, taxonomy data: --taxonomy-id)
• MetaPhlAn (-C/--cami-report, sample name: -s/--sample-id))

[DrYoungOG]

I see. Thanks for your prompt reply!