I need to accomodate metaphlan 3 and 4 UNKNOWN and UNCLASSIFIED read counts/relative abundances with importMetaphlan, as they may be informative sometimes.
I see two possibilities:
(1) Create a workaround that manually adds these columns to the taxonomic chosen
(2) before parsing anything from the local metaphlan file, add synthetic rows for these columns with identical values AND with the correct prefixes (e.g. d__UNKNOWN, p__UNKNOWN, ..., t__UNKNOWN)
As far as I can see, the function does not do this, as of today. Am I right?
Do you think this would be a valuable addition?
I need to accomodate metaphlan 3 and 4 UNKNOWN and UNCLASSIFIED read counts/relative abundances with
importMetaphlan, as they may be informative sometimes.I see two possibilities:
(1) Create a workaround that manually adds these columns to the taxonomic chosen
(2) before parsing anything from the local metaphlan file, add synthetic rows for these columns with identical values AND with the correct prefixes (e.g. d__UNKNOWN, p__UNKNOWN, ..., t__UNKNOWN)
As far as I can see, the function does not do this, as of today. Am I right?
Do you think this would be a valuable addition?