DS
Daan Speth
@daanspeth.bsky.social
Microbiologist and bioinformatician. Senior scientist at CMESS, University of Vienna.
Microbial ecology, mostly of nitrogen cycle and methane cycle microbes. Also geobiology, a side of obligate endosymbionts, and large scale protein family analyses
525 followers373 following49 posts
The person asking the question had compared the KOfam annotation of their genome using anvi'o with kofamscan & microbeannotator (same DB version) and found that anvi'o annotated roughly 1900 genes in the genome, whereas the other two annotated ~700. Quite the difference! 3/8
When I tried this on a Nirospira lineage 1 genome (related to model organism Nitrospira defluvii), the difference was much less pronounced (kofamscan 1838 vs anvi'o 2061), but still more than 10% extra genes recieved an annotation from anvi'o 4/8
DS
Daan Speth
@daanspeth.bsky.social
Microbiologist and bioinformatician. Senior scientist at CMESS, University of Vienna.
Microbial ecology, mostly of nitrogen cycle and methane cycle microbes. Also geobiology, a side of obligate endosymbionts, and large scale protein family analyses
525 followers373 following49 posts