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The S. mansoni count is shown after application of the TM-focused HMM and filtering of the predicted proteome (HMM), extensive manual curation (MC), homology-based searches against the nucleotide assembly (H) and a final round of manual curation (Final).
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The proposed message-passing scheme effectively addresses a number of limitations of the traditional pair-HMM-based approach, and extensive performance assessment based on BAliBASE 3.0 shows that the proposed scheme consistently outperforms the pair-HMM approach, both in terms of alignment accuracy and computational efficiency.
Overall, the extensive use of HMMs during this analysis allowed high confidence in predicted protein function, as well as certainty that several families of previously characterized anaerobic degradation enzymes for aromatic compounds are not present (eg BssABCD and BcrAB).
"Hmm hmm".
LaDue: "Hmm, hmm".
Elsewhere: hmm.
Q. Hmm.
CR: Hmm.
Hmm … Exactly.
NED: Hmm!
Hmm, revealing.
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CEO of Professional Science Editing for Scientists @ prosciediting.com