Package nct.service.homology

Interface Summary
HomologyModel An interface that provides access to something that provides expectation values (e.g.Blast or Fasta).
 

Class Summary
BiojavaLocalBlast A Blast implementation of the HomologyModel interface that runs Blast locally.
BlastXMLFileFilterInputStream This class extends a FilterInputStream and is used to filter out the extra xml version and DOCTYPE tags that come in Blast "XML" files for multiple queries and wraps the entire document in blast_aggregate tags.
LocalBlast A Blast implementation of the HomologyModel interface that runs Blast locally.
SIFHomologyReader A class that implements the HomologyModel interface by reading a SIF file that contains nodes from two separate graphs.