[Biopython] Adding method to remove gaps in MultipleSeqAlignment

[Peter Cock]

See also the deprecation of the Seq object's ungap method,
https://github.com/biopython/biopython/pull/3480

And the decision not to add an ungap method to the SeqRecord,
https://github.com/biopython/biopython/issues/1017

However, dropping columns in a MSA is rather different.

Over to Michiel to comment.

Peter

On Mon, Jun 21, 2021 at 3:23 PM Travis Wrightsman <tw493 at cornell.edu> wrote:
>
> Dear Biopython Devs,
>
> I have code that I wrote to generate a new MultipleSeqAlignment that has
> columns removed if they contained gaps in the first sequence. If I
> generalized this code to return a MultipleSeqAlignment with gaps removed
> in any specified record row, would this be something Biopython would want
> included?
>
> I also see the Alignment class looks to be the new, more general way to
> work with alignments in 1.80, should I implement this on
> MultipleSeqAlignment or Alignment?
>
> Travis
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