A B C D E F G H I L M N O P Q R S T V W

A

addPosTags(List<GeniaTag>) - Method in class org.cleartk.token.pos.genia.util.GeniaParse

addPosTags(List<GeniaTag>) - Method in class org.cleartk.token.pos.genia.util.GeniaSentence

addSemTags(List<GeniaTag>) - Method in class org.cleartk.token.pos.genia.util.GeniaParse

addSemTags(List<GeniaTag>) - Method in class org.cleartk.token.pos.genia.util.GeniaSentence

addSentence(GeniaSentence) - Method in class org.cleartk.token.pos.genia.util.GeniaParse

ampersandPattern - Static variable in class org.cleartk.token.tokenizer.PennTreebankTokenizer

ampersandRegex - Static variable in class org.cleartk.token.tokenizer.PennTreebankTokenizer

B

beginOrEndPattern - Static variable in class org.cleartk.token.tokenizer.PennTreebankTokenizer

beginOrEndRegex - Static variable in class org.cleartk.token.tokenizer.PennTreebankTokenizer

bracesPattern - Static variable in class org.cleartk.token.tokenizer.PennTreebankTokenizer

bracesRegex - Static variable in class org.cleartk.token.tokenizer.PennTreebankTokenizer

BreakIteratorAnnotator - Class in org.cleartk.token.breakit

Copyright (c) 2010, Regents of the University of Colorado
All rights reserved.

BreakIteratorAnnotator() - Constructor for class org.cleartk.token.breakit.BreakIteratorAnnotator

BreakIteratorAnnotator.BreakIteratorType - Enum in org.cleartk.token.breakit

BreakIteratorAnnotatorFactory - Class in org.cleartk.token.breakit

Copyright (c) 2010, Regents of the University of Colorado
All rights reserved.

BreakIteratorAnnotatorFactory() - Constructor for class org.cleartk.token.breakit.BreakIteratorAnnotatorFactory

C

chunks2Labels(JCas) - Method in class org.cleartk.token.tokenizer.chunk.ChunkTokenizerLabeler

Deprecated. In general, the chunks will be annotations of type Token and the labeled annotations will be annotations of type Subtoken creating labels such as B-TOKEN or I-TOKEN.

ChunkTokenizerFactory - Class in org.cleartk.token.tokenizer.chunk

Deprecated.

ChunkTokenizerFactory() - Constructor for class org.cleartk.token.tokenizer.chunk.ChunkTokenizerFactory

Deprecated.

ChunkTokenizerFeatureExtractor - Class in org.cleartk.token.tokenizer.chunk

Deprecated.

ChunkTokenizerFeatureExtractor() - Constructor for class org.cleartk.token.tokenizer.chunk.ChunkTokenizerFeatureExtractor

Deprecated.

ChunkTokenizerLabeler - Class in org.cleartk.token.tokenizer.chunk

Deprecated.

ChunkTokenizerLabeler() - Constructor for class org.cleartk.token.tokenizer.chunk.ChunkTokenizerLabeler

Deprecated.

close() - Method in class org.cleartk.token.pos.genia.GeniaPosGoldReader

closedBracesRegex - Static variable in class org.cleartk.token.tokenizer.PennTreebankTokenizer

colonPattern - Static variable in class org.cleartk.token.tokenizer.PennTreebankTokenizer

colonRegex - Static variable in class org.cleartk.token.tokenizer.PennTreebankTokenizer

commaPattern - Static variable in class org.cleartk.token.tokenizer.PennTreebankTokenizer

commaRegex - Static variable in class org.cleartk.token.tokenizer.PennTreebankTokenizer

createChunkTokenizer(String) - Static method in class org.cleartk.token.tokenizer.chunk.ChunkTokenizerFactory

Deprecated.

createChunkTokenizerDataWriter(String) - Static method in class org.cleartk.token.tokenizer.chunk.ChunkTokenizerFactory

Deprecated.

createPennTokenizer() - Static method in class org.cleartk.token.TokenComponents

createSentenceAnnotator(Locale) - Static method in class org.cleartk.token.breakit.BreakIteratorAnnotatorFactory

createSubtokenizer() - Static method in class org.cleartk.token.TokenComponents

createTokenAnnotator(Locale) - Static method in class org.cleartk.token.breakit.BreakIteratorAnnotatorFactory

D

dashPattern - Static variable in class org.cleartk.token.tokenizer.PennTreebankTokenizer

dashRegex - Static variable in class org.cleartk.token.tokenizer.PennTreebankTokenizer

DefaultFeatureExtractor - Class in org.cleartk.token.pos.impl

Copyright (c) 2009, Regents of the University of Colorado
All rights reserved.

DefaultFeatureExtractor() - Constructor for class org.cleartk.token.pos.impl.DefaultFeatureExtractor

DefaultPOSAnnotator - Class in org.cleartk.token.pos.impl

Copyright (c) 2009, Regents of the University of Colorado
All rights reserved.

DefaultPOSAnnotator() - Constructor for class org.cleartk.token.pos.impl.DefaultPOSAnnotator

dollarSignPattern - Static variable in class org.cleartk.token.tokenizer.PennTreebankTokenizer

dollarSignRegex - Static variable in class org.cleartk.token.tokenizer.PennTreebankTokenizer

doubleQuotePattern - Static variable in class org.cleartk.token.tokenizer.PennTreebankTokenizer

doubleQuoteRegex - Static variable in class org.cleartk.token.tokenizer.PennTreebankTokenizer

E

ellipsisPattern - Static variable in class org.cleartk.token.tokenizer.PennTreebankTokenizer

ellipsisRegex - Static variable in class org.cleartk.token.tokenizer.PennTreebankTokenizer

equals(Object) - Method in class org.cleartk.token.tokenizer.Token

extractFeatures(JCas, Token, Sentence) - Method in class org.cleartk.token.pos.impl.DefaultFeatureExtractor

extractFeatures(JCas, TOKEN_TYPE, SENTENCE_TYPE) - Method in interface org.cleartk.token.pos.POSFeatureExtractor

extractFeatures(JCas, Annotation, Annotation) - Method in class org.cleartk.token.tokenizer.chunk.ChunkTokenizerFeatureExtractor

Deprecated.

extraSpacePattern - Static variable in class org.cleartk.token.tokenizer.PennTreebankTokenizer

extraSpaceRegex - Static variable in class org.cleartk.token.tokenizer.PennTreebankTokenizer

F

featureExtractor - Variable in class org.cleartk.token.pos.POSAnnotator

G

Genia2PlainText - Class in org.cleartk.token.pos.genia

Copyright (c) 2009, Regents of the University of Colorado
All rights reserved.

Genia2PlainText() - Constructor for class org.cleartk.token.pos.genia.Genia2PlainText

GENIA_POS - Static variable in interface org.cleartk.token.pos.genia.GeniaPosViewName

The view containing Genia part of speech formatted text.

GeniaParse - Class in org.cleartk.token.pos.genia.util

Copyright (c) 2007-2008, Regents of the University of Colorado
All rights reserved.

GeniaParse() - Constructor for class org.cleartk.token.pos.genia.util.GeniaParse

GeniaPosGoldReader - Class in org.cleartk.token.pos.genia

Copyright (c) 2007-2008, Regents of the University of Colorado
All rights reserved.

GeniaPosGoldReader() - Constructor for class org.cleartk.token.pos.genia.GeniaPosGoldReader

GeniaPOSParser - Class in org.cleartk.token.pos.genia.util

Copyright (c) 2007-2008, Regents of the University of Colorado
All rights reserved.

GeniaPOSParser(File) - Constructor for class org.cleartk.token.pos.genia.util.GeniaPOSParser

GeniaPOSParser() - Constructor for class org.cleartk.token.pos.genia.util.GeniaPOSParser

GeniaPosViewName - Interface in org.cleartk.token.pos.genia

Copyright (c) 2010, Regents of the University of Colorado
All rights reserved.

GeniaSentence - Class in org.cleartk.token.pos.genia.util

Copyright (c) 2007-2008, Regents of the University of Colorado
All rights reserved.

GeniaSentence() - Constructor for class org.cleartk.token.pos.genia.util.GeniaSentence

GeniaTag - Class in org.cleartk.token.pos.genia.util

Copyright (c) 2007-2008, Regents of the University of Colorado
All rights reserved.

GeniaTag(String, List<Span>) - Constructor for class org.cleartk.token.pos.genia.util.GeniaTag

GeniaTag(String, Span) - Constructor for class org.cleartk.token.pos.genia.util.GeniaTag

getBegin() - Method in class org.cleartk.token.pos.genia.util.Span

getBegin() - Method in class org.cleartk.token.tokenizer.Token

getDescription(String) - Static method in class org.cleartk.token.pos.genia.GeniaPosGoldReader

getDescription() - Static method in class org.cleartk.token.tokenizer.TokenAnnotator

getDescription(TypeSystemDescription) - Static method in class org.cleartk.util.ae.parenthetical.ParentheticalAnnotator

Deprecated.

getDescription(TypeSystemDescription, Class<? extends Annotation>) - Static method in class org.cleartk.util.ae.parenthetical.ParentheticalAnnotator

Deprecated.

getDescription(TypeSystemDescription, Class<? extends Annotation>, char, char) - Static method in class org.cleartk.util.ae.parenthetical.ParentheticalAnnotator

Deprecated.

getDescription() - Static method in class org.cleartk.util.ae.parenthetical.ParentheticalAnnotator

getDescription(Class<? extends Annotation>) - Static method in class org.cleartk.util.ae.parenthetical.ParentheticalAnnotator

getDescription(Class<? extends Annotation>, char, char) - Static method in class org.cleartk.util.ae.parenthetical.ParentheticalAnnotator

getEnd() - Method in class org.cleartk.token.pos.genia.util.Span

getEnd() - Method in class org.cleartk.token.tokenizer.Token

getLabel() - Method in class org.cleartk.token.pos.genia.util.GeniaTag

getMedline() - Method in class org.cleartk.token.pos.genia.util.GeniaParse

getNext(JCas) - Method in class org.cleartk.token.pos.genia.GeniaPosGoldReader

getPosTags() - Method in class org.cleartk.token.pos.genia.util.GeniaParse

getPosTags() - Method in class org.cleartk.token.pos.genia.util.GeniaSentence

getProgress() - Method in class org.cleartk.token.pos.genia.GeniaPosGoldReader

getSemTags() - Method in class org.cleartk.token.pos.genia.util.GeniaParse

getSemTags() - Method in class org.cleartk.token.pos.genia.util.GeniaSentence

getSentences() - Method in class org.cleartk.token.pos.genia.util.GeniaParse

getSpan() - Method in class org.cleartk.token.pos.genia.util.GeniaSentence

getSpans() - Method in class org.cleartk.token.pos.genia.util.GeniaTag

getTag(JCas, Token) - Method in class org.cleartk.token.pos.impl.DefaultPOSAnnotator

getTag(JCas, TOKEN_TYPE) - Method in class org.cleartk.token.pos.POSAnnotator

getText() - Method in class org.cleartk.token.pos.genia.util.GeniaParse

getTokens(String) - Method in interface org.cleartk.token.tokenizer.Tokenizer

getTokens(String) - Method in class org.cleartk.token.tokenizer.Tokenizer_ImplBase

performs tokenization on the input text and returns the character offsets corresponding to the begining and end of each token w.r.t.

getTokenText() - Method in class org.cleartk.token.tokenizer.Token

getTokenTexts(String) - Method in class org.cleartk.token.tokenizer.PennTreebankTokenizer

Tokenizes the input text and returns a string array corresponding to the tokens.

getTokenTexts(String) - Method in class org.cleartk.token.tokenizer.Subtokenizer

getTokenTexts(String) - Method in class org.cleartk.token.tokenizer.Tokenizer_ImplBase

getXml() - Method in class org.cleartk.token.pos.genia.util.GeniaParse

H

hashCode() - Method in class org.cleartk.token.tokenizer.Token

hasNext() - Method in class org.cleartk.token.pos.genia.GeniaPosGoldReader

hasNext() - Method in class org.cleartk.token.pos.genia.util.GeniaPOSParser

I

initialize(UimaContext) - Method in class org.cleartk.token.breakit.BreakIteratorAnnotator

initialize(UimaContext) - Method in class org.cleartk.token.pos.genia.GeniaPosGoldReader

initialize(UimaContext) - Method in class org.cleartk.token.pos.impl.DefaultFeatureExtractor

initialize(UimaContext) - Method in class org.cleartk.token.pos.POSAnnotator

initialize(UimaContext) - Method in class org.cleartk.token.pos.TokenPOSWriter

initialize(UimaContext) - Method in class org.cleartk.token.tokenizer.chunk.ChunkTokenizerFeatureExtractor

Deprecated.

initialize(UimaContext) - Method in class org.cleartk.token.tokenizer.TokenAnnotator

initialize(UimaContext) - Method in class org.cleartk.util.ae.parenthetical.ParentheticalAnnotator

initializeTypes(JCas) - Method in class org.cleartk.token.pos.POSAnnotator

L

labeledAnnotationClass - Variable in class org.cleartk.token.tokenizer.chunk.ChunkTokenizerFeatureExtractor

Deprecated.

M

main(String[]) - Static method in class org.cleartk.token.pos.genia.Genia2PlainText

main(String[]) - Static method in class org.cleartk.token.pos.genia.util.GeniaPOSParser

multipleWhitespacePattern - Static variable in class org.cleartk.token.tokenizer.PennTreebankTokenizer

multipleWhitespacePattern - Static variable in class org.cleartk.token.tokenizer.Subtokenizer

multipleWhitespaceRegex - Static variable in class org.cleartk.token.tokenizer.PennTreebankTokenizer

multipleWhitespaceRegex - Static variable in class org.cleartk.token.tokenizer.Subtokenizer

N

next() - Method in class org.cleartk.token.pos.genia.util.GeniaPOSParser

nonFinalPunctPattern - Static variable in class org.cleartk.token.tokenizer.PennTreebankTokenizer

nonFinalPunctRegex - Static variable in class org.cleartk.token.tokenizer.PennTreebankTokenizer

nonPeriodPunctPattern - Static variable in class org.cleartk.token.tokenizer.PennTreebankTokenizer

nonPeriodPunctRegex - Static variable in class org.cleartk.token.tokenizer.PennTreebankTokenizer

O

oneWordAbbreviationPattern - Static variable in class org.cleartk.token.tokenizer.PennTreebankTokenizer

oneWordAbbreviationRegex - Static variable in class org.cleartk.token.tokenizer.PennTreebankTokenizer

openBracesRegex - Static variable in class org.cleartk.token.tokenizer.PennTreebankTokenizer

org.cleartk.token - package org.cleartk.token

org.cleartk.token.breakit - package org.cleartk.token.breakit

org.cleartk.token.pos - package org.cleartk.token.pos

org.cleartk.token.pos.genia - package org.cleartk.token.pos.genia

org.cleartk.token.pos.genia.util - package org.cleartk.token.pos.genia.util

org.cleartk.token.pos.impl - package org.cleartk.token.pos.impl

org.cleartk.token.tokenizer - package org.cleartk.token.tokenizer

org.cleartk.token.tokenizer.chunk - package org.cleartk.token.tokenizer.chunk

org.cleartk.util.ae.parenthetical - package org.cleartk.util.ae.parenthetical

P

PARAM_ANNOTATION_TYPE_NAME - Static variable in class org.cleartk.token.breakit.BreakIteratorAnnotator

PARAM_ARTICLE_IDS_LIST_FILE - Static variable in class org.cleartk.token.pos.genia.GeniaPosGoldReader

PARAM_BREAK_ITERATOR_TYPE - Static variable in class org.cleartk.token.breakit.BreakIteratorAnnotator

PARAM_FEATURE_EXTRACTOR_CLASS_NAME - Static variable in class org.cleartk.token.pos.POSAnnotator

PARAM_GENIA_CORPUS_FILE - Static variable in class org.cleartk.token.pos.genia.GeniaPosGoldReader

PARAM_LEFT_PARENTHESIS - Static variable in class org.cleartk.util.ae.parenthetical.ParentheticalAnnotator

PARAM_LOAD_POS_TAGS - Static variable in class org.cleartk.token.pos.genia.GeniaPosGoldReader

PARAM_LOAD_SENTENCES - Static variable in class org.cleartk.token.pos.genia.GeniaPosGoldReader

PARAM_LOAD_TOKENS - Static variable in class org.cleartk.token.pos.genia.GeniaPosGoldReader

PARAM_LOCALE - Static variable in class org.cleartk.token.breakit.BreakIteratorAnnotator

PARAM_PARENTHETICAL_TYPE_NAME - Static variable in class org.cleartk.util.ae.parenthetical.ParentheticalAnnotator

PARAM_RIGHT_PARENTHESIS - Static variable in class org.cleartk.util.ae.parenthetical.ParentheticalAnnotator

PARAM_TOKEN_TYPE_NAME - Static variable in class org.cleartk.token.tokenizer.TokenAnnotator

PARAM_TOKENIZER_NAME - Static variable in class org.cleartk.token.tokenizer.TokenAnnotator

PARAM_WINDOW_TYPE_NAME - Static variable in class org.cleartk.token.tokenizer.TokenAnnotator

PARAM_WINDOW_TYPE_NAME - Static variable in class org.cleartk.util.ae.parenthetical.ParentheticalAnnotator

ParentheticalAnnotator - Class in org.cleartk.util.ae.parenthetical

Copyright (c) 2011, Regents of the University of Colorado
All rights reserved.

ParentheticalAnnotator() - Constructor for class org.cleartk.util.ae.parenthetical.ParentheticalAnnotator

parse(Element) - Method in class org.cleartk.token.pos.genia.util.GeniaPOSParser

patterns - Variable in class org.cleartk.token.tokenizer.PennTreebankTokenizer

PennTreebankTokenizer - Class in org.cleartk.token.tokenizer

Copyright (c) 2007-2008, Regents of the University of Colorado
All rights reserved.

PennTreebankTokenizer() - Constructor for class org.cleartk.token.tokenizer.PennTreebankTokenizer

periodPattern - Static variable in class org.cleartk.token.tokenizer.PennTreebankTokenizer

periodRegex - Static variable in class org.cleartk.token.tokenizer.PennTreebankTokenizer

POSAnnotator<TOKEN_TYPE extends org.apache.uima.jcas.tcas.Annotation,SENTENCE_TYPE extends org.apache.uima.jcas.tcas.Annotation> - Class in org.cleartk.token.pos

Copyright (c) 2009, Regents of the University of Colorado
All rights reserved.

POSAnnotator() - Constructor for class org.cleartk.token.pos.POSAnnotator

POSFeatureExtractor<TOKEN_TYPE extends org.apache.uima.jcas.tcas.Annotation,SENTENCE_TYPE extends org.apache.uima.jcas.tcas.Annotation> - Interface in org.cleartk.token.pos

Copyright (c) 2009, Regents of the University of Colorado
All rights reserved.

process(JCas) - Method in class org.cleartk.token.breakit.BreakIteratorAnnotator

process(JCas) - Method in class org.cleartk.token.pos.POSAnnotator

process(JCas) - Method in class org.cleartk.token.tokenizer.TokenAnnotator

process(JCas) - Method in class org.cleartk.util.ae.parenthetical.ParentheticalAnnotator

Q

quotePattern - Static variable in class org.cleartk.token.tokenizer.PennTreebankTokenizer

quoteRegex - Static variable in class org.cleartk.token.tokenizer.PennTreebankTokenizer

R

remove() - Method in class org.cleartk.token.pos.genia.util.GeniaPOSParser

S

sentenceType - Variable in class org.cleartk.token.pos.POSAnnotator

setFeatureExtractorClassName(String) - Method in class org.cleartk.token.pos.POSAnnotator

setLabel(String) - Method in class org.cleartk.token.pos.genia.util.GeniaTag

setMedline(String) - Method in class org.cleartk.token.pos.genia.util.GeniaParse

setSpan(Span) - Method in class org.cleartk.token.pos.genia.util.GeniaSentence

setSpans(List<Span>) - Method in class org.cleartk.token.pos.genia.util.GeniaTag

setTag(JCas, Token, String) - Method in class org.cleartk.token.pos.impl.DefaultPOSAnnotator

setTag(JCas, TOKEN_TYPE, String) - Method in class org.cleartk.token.pos.POSAnnotator

setText(String) - Method in class org.cleartk.token.pos.genia.util.GeniaParse

setTokenizerName(String) - Method in class org.cleartk.token.tokenizer.TokenAnnotator

setTokenTypeName(String) - Method in class org.cleartk.token.tokenizer.TokenAnnotator

setWindowTypeName(String) - Method in class org.cleartk.token.tokenizer.TokenAnnotator

setXml(String) - Method in class org.cleartk.token.pos.genia.util.GeniaParse

singleQuotePattern - Static variable in class org.cleartk.token.tokenizer.PennTreebankTokenizer

singleQuoteRegex - Static variable in class org.cleartk.token.tokenizer.PennTreebankTokenizer

Span - Class in org.cleartk.token.pos.genia.util

Copyright (c) 2007-2008, Regents of the University of Colorado
All rights reserved.

Span(int, int) - Constructor for class org.cleartk.token.pos.genia.util.Span

Subtokenizer - Class in org.cleartk.token.tokenizer

Copyright (c) 2007-2008, Regents of the University of Colorado
All rights reserved.

Subtokenizer() - Constructor for class org.cleartk.token.tokenizer.Subtokenizer

subtokensPattern - Static variable in class org.cleartk.token.tokenizer.Subtokenizer

subtokensRegex - Static variable in class org.cleartk.token.tokenizer.Subtokenizer

T

tAbbreviationPattern - Static variable in class org.cleartk.token.tokenizer.PennTreebankTokenizer

tAbbreviationRegex - Static variable in class org.cleartk.token.tokenizer.PennTreebankTokenizer

TEST_FOLDS - Static variable in class org.cleartk.token.pos.genia.GeniaPosGoldReader

threeWordAbbreviationPatterns - Static variable in class org.cleartk.token.tokenizer.PennTreebankTokenizer

threeWordAbbreviationRegexes - Static variable in class org.cleartk.token.tokenizer.PennTreebankTokenizer

Token - Class in org.cleartk.token.tokenizer

Copyright (c) 2007-2008, Regents of the University of Colorado
All rights reserved.

Token(int, int, String) - Constructor for class org.cleartk.token.tokenizer.Token

TokenAnnotator - Class in org.cleartk.token.tokenizer

Copyright (c) 2007-2008, Regents of the University of Colorado
All rights reserved.

TokenAnnotator() - Constructor for class org.cleartk.token.tokenizer.TokenAnnotator

TokenComponents - Class in org.cleartk.token

Copyright (c) 2010, Regents of the University of Colorado
All rights reserved.

TokenComponents() - Constructor for class org.cleartk.token.TokenComponents

Tokenizer - Interface in org.cleartk.token.tokenizer

Copyright (c) 2007-2008, Regents of the University of Colorado
All rights reserved.

Tokenizer_ImplBase - Class in org.cleartk.token.tokenizer

Copyright (c) 2007-2008, Regents of the University of Colorado
All rights reserved.

Tokenizer_ImplBase() - Constructor for class org.cleartk.token.tokenizer.Tokenizer_ImplBase

TokenPOSWriter - Class in org.cleartk.token.pos

Copyright (c) 2007-2008, Regents of the University of Colorado
All rights reserved.

TokenPOSWriter() - Constructor for class org.cleartk.token.pos.TokenPOSWriter

tokenType - Variable in class org.cleartk.token.pos.POSAnnotator

toString() - Method in class org.cleartk.token.pos.genia.util.Span

toString() - Method in class org.cleartk.token.tokenizer.Token

TRAIN_FOLDS - Static variable in class org.cleartk.token.pos.genia.GeniaPosGoldReader

tripleQuotePattern - Static variable in class org.cleartk.token.tokenizer.PennTreebankTokenizer

tripleQuoteRegex - Static variable in class org.cleartk.token.tokenizer.PennTreebankTokenizer

twoWordAbbreviationPatterns - Static variable in class org.cleartk.token.tokenizer.PennTreebankTokenizer

twoWordAbbreviationRegexes - Static variable in class org.cleartk.token.tokenizer.PennTreebankTokenizer

TYPE_SYSTEM_DESCRIPTION - Static variable in class org.cleartk.token.TokenComponents

Deprecated.

typesInitialized - Variable in class org.cleartk.token.pos.POSAnnotator

V

valueOf(String) - Static method in enum org.cleartk.token.breakit.BreakIteratorAnnotator.BreakIteratorType

Returns the enum constant of this type with the specified name.

values() - Static method in enum org.cleartk.token.breakit.BreakIteratorAnnotator.BreakIteratorType

Returns an array containing the constants of this enum type, in the order they are declared.

W

writeAnnotation(JCas, Token) - Method in class org.cleartk.token.pos.TokenPOSWriter

A B C D E F G H I L M N O P Q R S T V W