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RasmussenLab / phamb

Downstream processing of VAMB binning for Viral Elucidation
MIT License
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Can PHAMB output comparable performance on environmental metagenome compared to gut metagenome #49

Closed liangjinsong closed 1 year ago

liangjinsong commented 1 year ago

Hi, given the Random Forest (RF) model to distinguish viral-like from bacterial-like genome bins in PHAMB was based on gut metagenome, I am wondering that can phamb output comparable performance on environmental metagenome compared to non-gut metagenome? Have you tested the performance of PHAMB on environmental metagenome?

Thank you in advance!

joacjo commented 1 year ago

Hi Liang

Unfortunately, we have not benchmarked Phamb performance on environmental metagenomes.

Best, Joachim