seth.ner.wrapper

Class SETHNER

java.lang.Object

seth.ner.wrapper.SETHNER

public class SETHNER
extends Object

Java wrapper for actual seth.ner.SETHNER code written in Scala

Constructor Summary

Constructors

Constructor and Description
SETHNER(boolean exactGrammar) Constructor for SETH-NER

Method Summary

Modifier and Type	Method and Description
List<MutationMention>	extractMutations(String text) Extracts mentions of mutations written in the HGVS nomenclature from natural language text

Methods inherited from class java.lang.Object

clone, equals, finalize, getClass, hashCode, notify, notifyAll, toString, wait, wait, wait

Constructor Detail

SETHNER

public SETHNER(boolean exactGrammar)

Constructor for SETH-NER

Parameters:

exactGrammar - specifies if we allow only exact backus naur grammar (higher precision) or inexact (higher recall). We recommend inexact as precision is still very high

Method Detail

extractMutations

public List<MutationMention> extractMutations(String text)

Extracts mentions of mutations written in the HGVS nomenclature from natural language text

Parameters:

text - Input natural language text

Returns:

A list of MutationMention objects