public class RelatedGenesOfInteractionsMiner extends MinerAdapter
blacklist, description, idFetcher, idMap, name, pattern
Constructor and Description |
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RelatedGenesOfInteractionsMiner()
Constructor that sets name and description.
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Modifier and Type | Method and Description |
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Pattern |
constructPattern()
Constructs the pattern.
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void |
writeResult(Map<BioPAXElement,List<Match>> matches,
OutputStream out)
Writes the IDs of interaction, then gene symbols of related proteins in a line.
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concat, createSIFInteraction, fetchIDs, getCellularLocations, getChain, getCompoundName, getDeltaCompartments, getDeltaModifications, getDescription, getGeneSymbol, getGeneSymbol, getHeader, getIdentifiers, getIdMap, getMediatorLabels, getModifications, getModifications, getModificationTerm, getName, getPattern, getPositionInString, getPositionStart, getRelationType, getSourcePELabels, getTargetPELabels, getUniprotNameForHuman, getUniprotNameForHuman, getValue, isInhibition, labeledInactive, removeCommon, setBlacklist, setDescription, setIDFetcher, setIdMap, setName, sign, sign, toString, toStringSet, writeResultAsSIF, writeResultDetailed, writeSIFsUsingSIFFramework
public RelatedGenesOfInteractionsMiner()
public Pattern constructPattern()
constructPattern
in class MinerAdapter
public void writeResult(Map<BioPAXElement,List<Match>> matches, OutputStream out) throws IOException
matches
- pattern search resultout
- output streamIOException
- when there's a problem writing to the output streamCopyright © 2015 BioPAX. All rights reserved.