[Biopython-dev] RNA alphabets; was Bio.PDB enhancements

[Peter]

On Wed, Jun 2, 2010 at 9:17 AM, Kristian Rother <krother at rubor.de> wrote:
>
> A potential problem that I'd like to point out early is that we are
> working with modified RNA nucleotides a lot (up to 20% of residues in
> every tRNA). This would require extending the RNA Alphabet (which now just
> is "AGCU") - but I see this as remote from the Bio.XXXX.read() thread.
>

What letters are you missing? There is a commented out ExtendedIUPACRNA
alphabet that may be relevant in Bio/Alphabets/IUPAC.py

Peter