waldronlab / waldronlab/BugSigDB
MetaPhlAn taxon names didn't have domain, then had domain, now don't have domain again
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Since Aug 1, 2025.
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Description
In March, @jwokaty and I scrambled to make changes to support domains being added to the MetaPhlAn taxon names. For instance, we were seeing taxa named:
"k__Bacteria|k__Bacillati|p__Bacillota|c__Clostridia|o__Lachnospirales|f__Lachnospiraceae|g__Blautia"
with two kingdoms assigned.
We updated this to support domains so that they would be named:
"d__Bacteria|k__Bacillati|p__Bacillota|c__Clostridia|o__Lachnospirales|f__Lachnospiraceae|g__Blautia"
Now it appears that the domain has been removed from the taxon names and I'm seeing in the raw export taxa that look like this:
"k__Bacillati|p__Actinomycetota|c__Actinomycetes|o__Bifidobacteriales|f__Bifidobacteriaceae"
So the domain has been removed.
Is this going to be the case going forward? Or do we have to support the potential for there to be a domain or not potentially?
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