A B C D E F G H I J K L M N O P R S T U V W X Y

D

DatabaseIterator - Class in uk.ac.man.documentparser.input

DatabaseIterator(MyConnection, String, boolean, String) - Constructor for class uk.ac.man.documentparser.input.DatabaseIterator

DatabaseListIterator - Class in uk.ac.man.documentparser.input

DatabaseListIterator(MyConnection, String, List<String>, boolean) - Constructor for class uk.ac.man.documentparser.input.DatabaseListIterator

de - Variable in class uk.ac.man.entitytagger.generate.ConvertToVariantsProblemIterator.ConvertToVariantsProblem

defaultHandler - Variable in class martin.common.xml.EntityResolver

deleteRows(MyConnection, File, String[], int, Logger) - Static method in class uk.ac.man.documentparser.misc.MedlineFixer

delimiter - Static variable in class dk.brics.automaton.CustomRunAutomaton

This delimiter char is used to separate regular expressions from their IDs.

delimiter - Variable in class martin.common.ExtractAbbrev

description - Variable in class uk.ac.man.entitytagger.Mention.IDPair

detectEncoding(BufferedReader) - Static method in class martin.common.Misc

will try to detect whether a text file is in utf-8 or windows-1252 format

detectEnumerations(List<Mention>, String) - Static method in class uk.ac.man.entitytagger.matching.Matcher

dict - Variable in class uk.ac.man.entitytagger.matching.matchers.TaxonGrabMatcher

dictionaryEntries - Variable in class uk.ac.man.entitytagger.generate.GenerateAutomatons.ToAutomatonProblemIterator

DictionaryEntry - Class in uk.ac.man.entitytagger.generate

A class representing a dictionary entry of some object, consisting of a number of regular expression synonyms and an id.

DictionaryEntry(String) - Constructor for class uk.ac.man.entitytagger.generate.DictionaryEntry

DictionaryEntry(String, String) - Constructor for class uk.ac.man.entitytagger.generate.DictionaryEntry

Directory - Class in uk.ac.man.documentparser.input

Directory(File, InputFactory, String, boolean) - Constructor for class uk.ac.man.documentparser.input.Directory

disambiguate(String, List<Mention>, Matcher.Disambiguation) - Static method in class uk.ac.man.entitytagger.matching.Matcher

disambiguate(String) - Method in class uk.ac.man.entitytagger.Mention

If containsID(id) is true, will set ids to id only (any other ids will be deleted), otherwise throws an exception

dk.brics.automaton - package dk.brics.automaton

doc - Variable in class uk.ac.man.documentparser.input.BMC

doc - Variable in class uk.ac.man.documentparser.input.PMC

doc - Variable in class uk.ac.man.documentparser.input.PMC2

doc - Variable in class uk.ac.man.entitytagger.matching.matchers.ConcurrentMatcher.MatchProblem

docArray - Variable in class uk.ac.man.entitytagger.evaluate.EvaluateProblem

docid - Variable in class uk.ac.man.entitytagger.Mention

docs - Variable in class uk.ac.man.documentparser.input.util.Skipper

Document - Class in uk.ac.man.documentparser.dataholders

Document(String, String, String, String, String, Document.Text_raw_type, String, Journal, Document.Type, Author[], String, String, String, String, ExternalID) - Constructor for class uk.ac.man.documentparser.dataholders.Document

Document.Text_raw_type - Enum in uk.ac.man.documentparser.dataholders

Document.Text_raw_type() - Constructor for enum uk.ac.man.documentparser.dataholders.Document.Text_raw_type

Document.Type - Enum in uk.ac.man.documentparser.dataholders

Document.Type() - Constructor for enum uk.ac.man.documentparser.dataholders.Document.Type

DocumentBuffer - Class in uk.ac.man.documentparser.input.util

DocumentBuffer(DocumentIterator, int, Logger) - Constructor for class uk.ac.man.documentparser.input.util.DocumentBuffer

DocumentIterator - Interface in uk.ac.man.documentparser.input

DocumentParser - Class in uk.ac.man.documentparser

DocumentParser() - Constructor for class uk.ac.man.documentparser.DocumentParser

documents - Variable in class uk.ac.man.documentparser.input.util.CleanUnicode

documents - Variable in class uk.ac.man.documentparser.input.util.DocumentBuffer

documents - Variable in class uk.ac.man.documentparser.input.util.Splitter

documents - Variable in class uk.ac.man.entitytagger.matching.matchers.ConcurrentMatcher

doServer(Matcher, int, int, Logger, boolean, int) - Static method in class uk.ac.man.entitytagger.EntityTagger

doTest(double) - Method in class martin.common.ChiTester

doTest(double, double, double, double) - Method in class martin.common.ChiTester

doTest(double, double, double) - Method in class martin.common.ChiTester

downloadURL(URL) - Static method in class martin.common.Misc

DrugBank - Class in uk.ac.man.entitytagger.entities.misc

This class will, given a DrugBank data file, parse its contents and output a tab-delimited regular expression file suitable for import by the automaton generating software.

DrugBank() - Constructor for class uk.ac.man.entitytagger.entities.misc.DrugBank

dtdLocation - Variable in class uk.ac.man.documentparser.input.BMCFactory

dtdLocations - Variable in class martin.common.xml.EntityResolver

dtdLocations - Variable in class uk.ac.man.documentparser.input.ElsevierFactory

dtdLocations - Variable in class uk.ac.man.documentparser.input.PMCFactory

dtds - Variable in class uk.ac.man.documentparser.input.MedlinePMCIndex

dtds - Variable in class uk.ac.man.documentparser.input.MedlinePMCIndexFactory

dtds - Variable in class uk.ac.man.documentparser.input.PMCIndex

dtds - Variable in class uk.ac.man.documentparser.input.PMCIndexFactory

DuplicationMatcher - Class in uk.ac.man.entitytagger.matching.matchers

DuplicationMatcher(Matcher) - Constructor for class uk.ac.man.entitytagger.matching.matchers.DuplicationMatcher