Package

org.clulab.processors.bionlp

ner

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package ner

Visibility
  1. Public
  2. All

Type Members

  1. class BioNERFactory[IN <: CoreLabel] extends NERFeatureFactory[IN]

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  2. class CRFNER extends AnyRef

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    Our own BIO NER trained on the BioCreative 2 dataset, using the Stanford CRF User: mihais Date: 2/27/15

  3. class HybridNER extends AnyRef

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    Combines RuleNER and CRFNER into a, surprise surprise, hybrid NER User: mihais Date: 2/9/17

  4. case class KBEntry(kbName: String, neLabel: String, validSpecies: Set[String]) extends Product with Serializable

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  5. class KBLoader extends AnyRef

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  6. class LexicalVariations extends AnyRef

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    User: mihais Date: 10/20/16

  7. class RuleEntityValidator extends EntityValidator

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    Validates if the span identified as an entity is actually valid User: mihais Date: 10/24/16

  8. class RuleNER extends AnyRef

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    Rule-based NER for the Bio domain If useLemmas is true, tokens are matched using lemmas, otherwise using words knownCaseInsensitives contains single-token entities that can be spelled using lower case, according to the KB(s) The order of the matchers is important: it indicates priority during ties (first has higher priority) User: mihais Date: 5/11/15

  9. class SeqScorer extends AnyRef

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    Computes P, R, F1 scores for the complete mentions produced by a sequence tagger User: mihais Date: 2/27/15

Value Members

  1. object CRFNER

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  2. object HybridNER

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  3. object KBGenerator

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    User: mihais Date: 2/7/16 Last Modified: Update for 5-column NER override file format.

  4. object KBLoader

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    Loads the KBs from bioresources under org/clulab/reach/kb/ner These must be generated offline by KBGenerator; see bioresources/ner_kb.sh User: mihais.

    Loads the KBs from bioresources under org/clulab/reach/kb/ner These must be generated offline by KBGenerator; see bioresources/ner_kb.sh User: mihais. 2/7/16. Last Modified: Update to use external configuration file.

  5. object LexicalVariations

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  6. object RuleNER

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Ungrouped