bio

Type Members

1. class BioLexicalVariations extends LexicalVariations

   

   Generates all accepted lexical variations for this entity For example: "insulin receptor substrate 1" => "insulin receptor substrate-1" User: mihais Date: 10/20/16

   Generates all accepted lexical variations for this entity For example: "insulin receptor substrate 1" => "insulin receptor substrate-1" User: mihais Date: 10/20/16

   Annotations

   @SerialVersionUID()

2. class BioLexiconEntityValidator extends EntityValidator

   

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

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

   Annotations

   @SerialVersionUID()

3. class BioNERPostProcessor extends SentencePostProcessor

   

   User: mihais Date: 10/22/17

4. class BioPOSPostProcessor extends SentencePostProcessor

   

   Fixes some common POS tagging mistakes in the bio domain (in place)

   Fixes some common POS tagging mistakes in the bio domain (in place)

   Note: this class is used by the CRF-based BioNER to cleanup its training data (from BioCreative 2), through org.clulab.processors.bionlp.BioNLPPOSTaggerPostProcessor. This means that every time there are changes here, the CRF should be retrained. Tell Mihai. User: mihais Date: 9/23/17

5. class BioTokenizerPostProcessor extends TokenizerPostProcessor

   

   Processes tokenization so it suits bio analysis

6. class BioTokenizerPreProcessor extends TokenizerPreProcessor

   

   Preprocesses bio text, including Unicode normalization, and removing figure and table references User: mihais Date: 9/10/17

7. case class ComplexSubToken(text: String, start: Int, length: Int) extends Product with Serializable

   

8. case class PostProcessorToken(word: String, beginPosition: Int, endPosition: Int) extends Product with Serializable