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Pfam & DAS

Pfam & DAS. Rob Finn 26 th Feb 2007. Acknowledgements. John Tate Roger Pettett Andreas Prlic Andy Jenkinson But takes data from community…..!. New Pfam Website!. New Pfam Website!. DAS Enabled. What do we provide?. Pfam Domains Active Sites Other sequence Features Alignments

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Pfam & DAS

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  1. Pfam & DAS Rob Finn 26th Feb 2007

  2. Acknowledgements • John Tate • Roger Pettett • Andreas Prlic • Andy Jenkinson • But takes data from community…..!

  3. New Pfam Website!

  4. New Pfam Website! DAS Enabled

  5. What do we provide? • Pfam Domains • Active Sites • Other sequence Features • Alignments • Alignment features

  6. Pfam Alignment Client • Motivation • Simple alignment client • Not trying to reinvent Jalview • Markup alignment • Pfam alignments vary in size • Paging

  7. Pfam Alignment Client • Example - combines alignment and features requests

  8. Pfam Features Client • Motivation • Include Other annotations • Identify where we are missing domains • Reduce data duplication • Allow tailored views • Enrich single protein data in Pfam

  9. Pfam Features Client

  10. Other Datasets

  11. What Code Base? • Pfam is Perl orientated • Server • ProServer (CPAN) • Client • Bio::Das::Lite (CPAN) • Bio::Pfam::Drawing • Break out?

  12. What Can’t I Do (with Das)? • Asynchronous requests • Return pfam_scan results via DAS • Mapping experimental datasets to public datasets • Serve Pfam Textual Annotation • SOAP implementation

  13. What is Hard to Do? • Large scale analyses • Filter out rubbish! • But what is one man’s rubbish…. • Requirement for stylesheet? • Standard Graphics library?

  14. What Worries Me? • Data deluge • Make Views….? • Other people serve Pfam data • Confusion…..? • Redundancy • People always want more from clients

  15. Thank you!

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