pfam pfam & das rob finn 26 th feb 2007. pfam acknowledgements john tate roger pettett andreas...
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Pfam Acknowledgements
• John Tate
• Roger Pettett
• Andreas Prlic
• Andy Jenkinson
• But takes data from community…..!
Pfam What do we provide?
• Pfam Domains
• Active Sites
• Other sequence Features
• Alignments
• Alignment features
Pfam Pfam Alignment Client
• Motivation– Simple alignment client
• Not trying to reinvent Jalview
– Markup alignment– Pfam alignments vary in size
• Paging
Pfam 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
Pfam What Code Base?
• Pfam is Perl orientated– Server
• ProServer (CPAN)
– Client• Bio::Das::Lite (CPAN)• Bio::Pfam::Drawing
– Break out?
Pfam 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
Pfam What is Hard to Do?
• Large scale analyses
• Filter out rubbish!– But what is one man’s rubbish….
• Requirement for stylesheet?
• Standard Graphics library?
Pfam What Worries Me?
• Data deluge– Make Views….?
• Other people serve Pfam data– Confusion…..?– Redundancy
• People always want more from clients
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