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.