Hi Titus, Thanks for all your work on simpleframe and the blast tutorial! I have a couple questions about your simpleframe fixes.
- commit 56a0699: for trans_seq in tdb.annodb: This loops over all sequences in the annotation db, and then tries them to see if they're in the alignment. If the annotation db is large, that could get really slow. I think we could clean this up by simply adding a SeqTranslator method that iterates over all six of its frames. We would then just use that iterator on our query sequence instead of looping over all sequences in the annotation db. - what is the status of your simpleframe_ctb branch, which provides the translation() method that you said you wanted? Should this be merged to master? -- Chris --~--~---------~--~----~------------~-------~--~----~ You received this message because you are subscribed to the Google Groups "pygr-dev" group. To post to this group, send email to [email protected] To unsubscribe from this group, send email to [email protected] For more options, visit this group at http://groups.google.com/group/pygr-dev?hl=en -~----------~----~----~----~------~----~------~--~---
