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collectionProcessComplete() - Method in class de.julielab.jcore.ae.linnaeus.LinnaeusSpeciesAnnotator

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de.julielab.jcore.ae.linnaeus - package de.julielab.jcore.ae.linnaeus

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getMatcher() - Method in interface de.julielab.jcore.ae.linnaeus.LinnaeusMatcherProvider

getMatcher() - Method in class de.julielab.jcore.ae.linnaeus.LinnaeusMatcherProviderImpl

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initialize(UimaContext) - Method in class de.julielab.jcore.ae.linnaeus.LinnaeusSpeciesAnnotator

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LinnaeusMatcherProvider - Interface in de.julielab.jcore.ae.linnaeus

LinnaeusMatcherProviderImpl - Class in de.julielab.jcore.ae.linnaeus

LinnaeusMatcherProviderImpl() - Constructor for class de.julielab.jcore.ae.linnaeus.LinnaeusMatcherProviderImpl

LinnaeusSpeciesAnnotator - Class in de.julielab.jcore.ae.linnaeus

Uses the Linnaeus software (http://linnaeus.sourceforge.net/) to detect species mentions and map them to NCBI taxonomy IDs.

LinnaeusSpeciesAnnotator() - Constructor for class de.julielab.jcore.ae.linnaeus.LinnaeusSpeciesAnnotator

load(DataResource) - Method in class de.julielab.jcore.ae.linnaeus.LinnaeusMatcherProviderImpl

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PARAM_CONFIG_FILE - Static variable in class de.julielab.jcore.ae.linnaeus.LinnaeusSpeciesAnnotator

process(JCas) - Method in class de.julielab.jcore.ae.linnaeus.LinnaeusSpeciesAnnotator

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RES_KEY_LINNAEUS_MATCHER - Static variable in class de.julielab.jcore.ae.linnaeus.LinnaeusSpeciesAnnotator

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