MetaPhlAn version 4.0.4 (17 Jan 2023)
database: mpa_vOct22_CHOCOPhlAnSGB_202212
Hello
I noticed a human fecal sample of ours had an unusually high percentage of unclassified reads in it. Running the sample through Kraken2, we identified that the majority of unclassified reads likely being to C. amalonaticus and some other Citrobacter species. I’m a bit surprised by this. Do you know why this genus and species might be underrepresented in the MetaPhlAn4 database?
Thanks!
Scott