[Biojava-l] biojava3 getting the features from alignedsequence

[Scooter Willis]

Hara

Can you provide more of the code you are using that shows how you are
loading the initial sequences.

Thanks

Scooter

On Thu, Jan 6, 2011 at 7:09 PM, Hara Dilley <hdilley at catbio.com> wrote:

> Hi,
>
> I would like to align a set of sequences against a scaffold and get the
> list of the modifications for each aligned sequence.
> I am using biojava3
> I have tried to create a profile  thinking that I can get the
> AlignedSequences from it but that it appears to be null.
> Here is part of my code:
>
> Profile<ProteinSequence, AminoAcidCompound> profile =
> Alignments.getMultipleSequenceAlignment(lst);
> Profile.getAlignedSequence(0);
>
> Can someone please point to an example for this or to the classes I have to
> use.
> Thank you,
> Hara
>
>
> _______________________________________________
> Biojava-l mailing list  -  Biojava-l at lists.open-bio.org
> http://lists.open-bio.org/mailman/listinfo/biojava-l
>
>