[Bioperl-l] gapped translate

[Jason Stajich]

On Sat, 27 Dec 2003, Ewan Birney wrote:

>
>
> On Sat, 27 Dec 2003, Jason Stajich wrote:
>
> > Does anyone object to adding some code to CodonTable->translate
> > so that
> >  atg---aar---aay
> > becomes
> >  M-K--N
> >
> > Currently it will be translated as
> >  MXKXXN
>
> surely it should be
>
> atg---aar------aay
>
> to get M-K--N?
>
oops - copy+paste of old test should have been M-K--N

>
> ...if so, fine by me, but I'd wait for some other views as well.
>

okay - I committed the basic stuff so it can be seen - can roll back if
it is not good.

>
> I'd also map \.\.\. to \.
>
hmm - okay will see where to put that.
>
>
>
> >
> >
> > -jason
> >
> >
> > --
> > Jason Stajich
> > Duke University
> > jason at cgt.mc.duke.edu
> > _______________________________________________
> > Bioperl-l mailing list
> > Bioperl-l at portal.open-bio.org
> > http://portal.open-bio.org/mailman/listinfo/bioperl-l
> >
>

--
Jason Stajich
Duke University
jason at cgt.mc.duke.edu