User: dbsseven

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dbsseven0
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Posts by dbsseven

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Comment: C: hmm without realigning
... Hi h.mon, I understood that this is expected, but should have been more clear. I was looking for suggestions on an alternative method. Either a way to re-align the emitted sequence against the MSA, or an alternative hmm model builder which would include gaps. ...
written 1 day ago by dbsseven0
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Comment: C: hmm without realigning
... Added by editing the initial question. ...
written 2 days ago by dbsseven0
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Comment: C: hmm without realigning
... Yes I have lots of sequences, but I would like new sequences that are not necessarily in the MSA but which fit within the HMM model. (In the same way a trained HMM model can identify unique sequences, not necessarily only those within the training MSA. But now emitting sequences rather than searchin ...
written 2 days ago by dbsseven0
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hmm without realigning
... Hi all, I am trying to generate plausible *aligned* sequences from a MSA. My current idea is to use hmmer's hmmbuild to build a hmm model, then hmmemit -> hmmalign to generate an aligned sequence. However, it seems like hmmbuild is realigning the sequences. Therefore the final aligned sequence ...
alignment hmm written 5 days ago by dbsseven0 • updated 2 days ago by h.mon22k

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