Package net.sourceforge.taverna.scuflworkers.ncbi

Provides LocalWorkers capable of querying data from the NCBI databases.

See:
Description

Class Summary

AbstractEFetchWorker	This class provides the basis for all NCBI EFetch Tasks.
AbstractNCBIWorker	This class provides basic common functionality needed by all NCBIWorkers.
EFetchWorker	This class provides a wrapper for the NCBI EFetch Utilities.
EntrezGeneWorker	This processor is responsible for fetching an Entrez Gene record in XML format.
EntrezProteinWorker	This processor fetches an Entrez Protein record from NCBI.
FileStreamProcessor	This class takes an input stream and writes the contents to a file.
HomoloGeneWorker	This class fetches HomoloGene data from NCBI.
INSDSeqXMLWorker
LocusLinkWorker	This class is designed to fetch locuslink data from the NCBI database as XML.
NCBIXMLStreamProcessor	This class cleans up NCBI pseudoXML embedded in HTML pages, and turns it into valid XML.
NCBIXSLTStreamProcessor	This class is capable of downloading, cleaning up and transforming NCBI XML.
NucleotideFastaWorker	This processor fetches a nucleotide sequence in FASTA format.
NucleotideGBSeqWorker	This processor returns a GB Seq formatted record.
NucleotideINSDSeqXMLWorker	This processor returns a INSD formatted nucleotide record
NucleotideTinySeqXMLWorker	This processor fetches a nucleotide sequence from NCBI and returns the results in the TinySeqXML format.
NucleotideXMLWorker	This class fetches Nucleotide XML documents.
OMIMWorker	This processor fetches an OMIM record from the NCBI database in XML format.
ProteinFastaWorker	This processor fetches a protein sequence in FASTA format.
ProteinGBSeqWorker	This class fetches protein data in GBSeq XML format.
ProteinINSDSeqXMLWorker	This processor fetches an INSD formatted protein record
ProteinTinySeqXMLWorker	This processor fetches a protein in TinySeqXML format.
PubMedEFetchWorker	This class is used to fetch pubmed articles in XML form.
PubMedESearchWorker	This processor searches for articles in PubMed and returns their IDs in XML format.
PubMedSearchWorker	This class downloads PubMed records in XML format.
ReplacementStreamProcessor	This class replaces text in the stream Last edited by $Author: sowen70 $
SNPWorker	This processor fetches SNP records.
XSLTStreamProcessor	This class is used to apply an XSLT to a stream.

Package net.sourceforge.taverna.scuflworkers.ncbi Description

Provides LocalWorkers capable of querying data from the NCBI databases.