Taxonomic assignment: columns of the intermediate result

lczech / gappa

A toolkit for analyzing and visualizing phylogenetic (placement) data

GNU General Public License v3.0

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Taxonomic assignment: columns of the intermediate result #3

Closed ewenewen closed 6 years ago

ewenewen commented 6 years ago

Hi Lucas and thanks again for this quickly-evolving tool.

I'd like to use the assign subcommand, in order to give the label of the branch on which a query is best placed. For this I guessed that I'd have to use the intermediate result file per_query_assign that contains the per-query assignments. However I couldn't find what the four columns exactly mean. Could you give me some light?

Thanks! Cheers, Ewen

pierrebarbera commented 6 years ago

Hi Ewen!

The columns should be identical to the final output:

LWR fract aLWR afract taxopath

Sorry that it's not documented; fixing it right now. I think I will include the header once at the start of that file as well, even though it is not immediately followed by the actual column data.

Pierre

ewenewen commented 6 years ago

Perfect, thanks! Ewen