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

A

A - Variable in class org.knowceans.dirichlet.atm.AtmMarkovState

total number of authors

A - Variable in class org.knowceans.dirichlet.lsam.LsamGibbsSampler

total number of actors

a - Variable in class org.knowceans.sandbox.VectorSpeed.Entry

a_0 - Variable in class net.sf.snowball.ext.EnglishStemmer

a_0 - Variable in class net.sf.snowball.ext.GermanStemmer

a_0 - Variable in class net.sf.snowball.ext.LovinsStemmer

a_0 - Variable in class net.sf.snowball.ext.PorterStemmer

a_1 - Variable in class net.sf.snowball.ext.EnglishStemmer

a_1 - Variable in class net.sf.snowball.ext.GermanStemmer

a_1 - Variable in class net.sf.snowball.ext.LovinsStemmer

a_1 - Variable in class net.sf.snowball.ext.PorterStemmer

a_2 - Variable in class net.sf.snowball.ext.EnglishStemmer

a_2 - Variable in class net.sf.snowball.ext.GermanStemmer

a_2 - Variable in class net.sf.snowball.ext.LovinsStemmer

a_2 - Variable in class net.sf.snowball.ext.PorterStemmer

a_3 - Variable in class net.sf.snowball.ext.EnglishStemmer

a_3 - Variable in class net.sf.snowball.ext.GermanStemmer

a_3 - Variable in class net.sf.snowball.ext.LovinsStemmer

a_3 - Variable in class net.sf.snowball.ext.PorterStemmer

a_4 - Variable in class net.sf.snowball.ext.EnglishStemmer

a_4 - Variable in class net.sf.snowball.ext.GermanStemmer

a_4 - Variable in class net.sf.snowball.ext.PorterStemmer

a_5 - Variable in class net.sf.snowball.ext.EnglishStemmer

a_5 - Variable in class net.sf.snowball.ext.PorterStemmer

a_6 - Variable in class net.sf.snowball.ext.EnglishStemmer

a_7 - Variable in class net.sf.snowball.ext.EnglishStemmer

a_8 - Variable in class net.sf.snowball.ext.EnglishStemmer

a_9 - Variable in class net.sf.snowball.ext.EnglishStemmer

AActor - Class in org.knowceans.corpus.xpert

AActor an abstract actor class -- usually refers to authors of documents or queriers.

AActor() - Constructor for class org.knowceans.corpus.xpert.AActor

abstractsonly - Variable in class org.knowceans.corpus.parsers.nips.NipsExtractor

abstractText - Variable in class org.knowceans.corpus.parsers.nips.NipsDocument

abstract

abstractText - Variable in class org.knowceans.corpus.parsers.nips.NipsExtractor.Entry

abz - Variable in class org.knowceans.corpus.parsers.dpa.DpaDocument

<abz>?

ACTIVE - Static variable in class org.knowceans.sandbox.hdpmix.HierDirProcess

ActorMediaGenerator - Class in org.knowceans.dirichlet.sandbox

ActorMediaGenerator models the access behaviour of a community of people for a given corpus and its topic model.

ActorMediaGenerator() - Constructor for class org.knowceans.dirichlet.sandbox.ActorMediaGenerator

ActorNames - Class in org.knowceans.corpus.util

ActorNames is a static class that provides normalisation functions for person names to identify actors.

ActorNames() - Constructor for class org.knowceans.corpus.util.ActorNames

actors - Variable in class org.knowceans.dirichlet.lsam.LsamGibbsSampler

actor data (co-author lists and queriers)

ad - Variable in class org.knowceans.dirichlet.atm.AtmMarkovState

document authors [M][]

add(Vector<String>) - Method in class org.knowceans.corpus.TermCorpus

add one term vector

add(Vector<String>) - Method in class org.knowceans.corpus.TermCorpusOld

Deprecated. add one term vector

addClass(HierDirProcess) - Method in class org.knowceans.sandbox.hdpmix.HierDirProcess

int hdp_addclass(HDP *hdp) Adds one new class, increment maxclass if necessary, returns new number of classes.

addComponent() - Method in class org.knowceans.sandbox.gauss.IgmmGibbsSampler

handle size of componentwise structures.

addComponent() - Method in class org.knowceans.sandbox.gauss.SimpleIgmmGibbsSampler

handle size of componentwise structures.

addComponent() - Method in class org.knowceans.sandbox.ilda.IldaGibbsSampler

handle size of componentwise structures.

addData(HyperParams, int[], int) - Static method in class org.knowceans.sandbox.hdpmix.MultinomialUtils

add data to the observations.

addDataLik(HyperParams, int[], int) - Static method in class org.knowceans.sandbox.hdpmix.MultinomialUtils

add data to observations and return likelihood.

addDp(HierDirProcess, int, int, int) - Method in class org.knowceans.sandbox.hdpmix.HierDirProcess

Adds new DPs into the hdp, retuns the new HDP and the indices of the new DPs.

addObservation(double[], int) - Method in class org.knowceans.dirichlet.dmm.DmmGibbsSampler

For updating mixture parameters

addObservation(double, int, double[], double[], double[]) - Method in class org.knowceans.sandbox.gauss.GmmGibbsSampler

For updating mixture parameters

addObservation(double, int, double[], double[], double[]) - Method in class org.knowceans.sandbox.gauss.GmmGibbsSampler2

For updating mixture parameters

ADocument - Class in org.knowceans.corpus

ADocument is an abstract document, which can be subclassed to reflect special features of a corpus.

ADocument() - Constructor for class org.knowceans.corpus.ADocument

aggregateSentences(String) - Method in class org.knowceans.corpus.parsers.dpa.DpaSaxParser

Adds text to the sentenceBuffer.

aggregateSentences(String) - Method in class org.knowceans.corpus.parsers.dpa.DpaSaxParser2

Adds text to the sentenceBuffer.

all - Variable in class org.knowceans.corpus.parsers.igdbib.BibHtml2Xml

allActors - Variable in class org.knowceans.corpus.AmqCorpus

all authors

allActors - Variable in class org.knowceans.corpus.analysis.AtmTopicsConverter

allAuthors - Variable in class org.knowceans.corpus.xpert.AuthorTermCorpus

all authors

allAuthors - Static variable in class org.knowceans.corpus.xpert.XptDb2Corpus

allDocs - Variable in class org.knowceans.corpus.parsers.dpa.DpaSaxParser

allDocs - Variable in class org.knowceans.corpus.parsers.dpa.DpaSaxParser2

allDocs - Variable in class org.knowceans.corpus.parsers.epg.EpgParser

allDocs - Static variable in class org.knowceans.corpus.parsers.igdbib.IgdSaxParser

allDocs - Variable in class org.knowceans.corpus.parsers.reuters.ReutersParser

allDocs - Variable in class org.knowceans.corpus.parsers.TxtParser

allDocs - Static variable in class org.knowceans.corpus.xpert.XptDb2Corpus

allJsDistances(double[][], boolean) - Method in class org.knowceans.corpus.analysis.LdaSimilarityAnalyser

Compute all js distances between the distributions in the

allMutualLikelihoods(double[][], double[][]) - Method in class org.knowceans.corpus.analysis.LdaSimilarityAnalyser

Compute all mutual likelihoods (via a dot product, integrating out z).

alpha - Variable in class org.knowceans.dirichlet.lda.LdaConfiguration

Dirichlet parameter (document--topic associations)

alpha - Variable in class org.knowceans.dirichlet.lsam.LsamGibbsSampler

Dirichlet parameter (actor--topic associations)

alpha - Variable in class org.knowceans.dirichlet.sandbox.LdaGibbsSamplerDpa

Deprecated. Dirichlet parameter (document--topic associations)

alpha - Variable in class org.knowceans.dirichlet.sandbox.LdaMarkovStateHyper

symmetric hyperparameter alpha or sum of valpha trained from observations, not used for a priori alpha.

alpha - Variable in class org.knowceans.sandbox.gauss.IgmmGibbsSampler

crp prior

alpha - Variable in class org.knowceans.sandbox.gauss.SimpleIgmmGibbsSampler

crp prior

alpha - Variable in class org.knowceans.sandbox.hdpmix.ConParams

The concentration parameter itself.

alpha - Variable in class org.knowceans.sandbox.hdpmix.DirichletProcess

The concentration parameter itself.

alphaa - Variable in class org.knowceans.sandbox.hdpmix.ConParams

The shape parameter for the gamma prior over alpha.

alphab - Variable in class org.knowceans.sandbox.hdpmix.ConParams

The inverse scale parameter for the gamma prior over alpha.

alphaParams - Variable in class org.knowceans.dirichlet.sandbox.LdaGibbsSamplerHyper

alphaSampler - Variable in class org.knowceans.dirichlet.sandbox.LdaGibbsSamplerHyper

alphaSampler - Variable in class org.knowceans.sandbox.gauss.IgmmGibbsSampler

sampler for alpha

Among - Class in net.sf.snowball

Among(String, int, int, String, SnowballProgram) - Constructor for class net.sf.snowball.Among

amq - Variable in class org.knowceans.corpus.parsers.nips.NipsExtractor

AmqCorpus - Class in org.knowceans.corpus

ActorMediaCorpus implements an AMQ corpus, i.e., a document corpus with added functionality for authors and queriers.

AmqCorpus() - Constructor for class org.knowceans.corpus.AmqCorpus

AmqCorpus(ICategories) - Constructor for class org.knowceans.corpus.AmqCorpus

AmqCorpus(String, boolean, ICategories) - Constructor for class org.knowceans.corpus.AmqCorpus

create an actor-media corpus from files, which means for the corpus root name, all files are read: *.vocab, *.docs, *.actors, *.corpus.

AmqCorpus(int, int) - Constructor for class org.knowceans.corpus.AmqCorpus

Initialiser with size filters.

AmqCorpus(String, boolean) - Constructor for class org.knowceans.corpus.AmqCorpus

create an actor-media corpus from files, which means for the corpus root name, all files are read: *.vocab, *.docs, *.actors, *.corpus.

AmqCorpusStatistics - Class in org.knowceans.corpus.analysis

ActorMediaCorpusStatistics

AmqCorpusStatistics(AmqCorpus) - Constructor for class org.knowceans.corpus.analysis.AmqCorpusStatistics

amqphi - Variable in class org.knowceans.corpus.analysis.LdaAmqDistance

the AMQ word--topic associations

analyse(String, boolean, String, double, double, String, String) - Method in class org.knowceans.corpus.analysis.TopicsConverter

Analyse binary probability matrix (conditional).

analyseMatching(String, String) - Method in class org.knowceans.corpus.analysis.AtmTopicsConverter

Analyse binary actor--topic relations using KL divergence.

analyser - Variable in class org.knowceans.dirichlet.sandbox.LdaGibbsSamplerDpa

Deprecated.

analyseTopics() - Static method in class org.knowceans.corpus.parsers.epg.EpgAll

analyseTopics() - Static method in class org.knowceans.corpus.parsers.nips.NipsAtm

analyseTopics() - Static method in class org.knowceans.corpus.parsers.nips.NipsLda

analyseTopics() - Static method in class org.knowceans.corpus.parsers.TxtAtm

analyseTopics() - Static method in class org.knowceans.corpus.parsers.TxtLda

area(ArmSampler.Point) - Method in class org.knowceans.arms.ArmSampler

To integrate piece of exponentiated envelope to left of POINT q

arms(Object, double[], int, double[], double[], double[], int, boolean, double[], double[], int, double[], double[], int, int[]) - Method in class org.knowceans.arms.ArmSampler

to perform derivative-free adaptive rejection sampling with metropolis step

ArmSampler - Class in org.knowceans.arms

ArmSampler implements an adaptive rejection Metropolis sampler (ARMS) that can sample from virtually any univariate distribution.

ArmSampler() - Constructor for class org.knowceans.arms.ArmSampler

init (nothing to do)

ArmSampler.Envelope - Class in org.knowceans.arms

attributes of the entire rejection envelope

ArmSampler.Envelope() - Constructor for class org.knowceans.arms.ArmSampler.Envelope

ArmSampler.Metropolis - Class in org.knowceans.arms

for metropolis step

ArmSampler.Metropolis() - Constructor for class org.knowceans.arms.ArmSampler.Metropolis

ArmSampler.Point - Class in org.knowceans.arms

a point in the x,y plane

ArmSampler.Point() - Constructor for class org.knowceans.arms.ArmSampler.Point

armsSimple(Object, int, double[], double[], boolean, double[]) - Method in class org.knowceans.arms.ArmSampler

adaptive rejection metropolis sampling - simplified argument list

assign_to(StringBuffer) - Method in class net.sf.snowball.SnowballProgram

atmbase - Variable in class org.knowceans.dirichlet.atm.AtmQueryClient

AtmGibbsQuerySampler - Class in org.knowceans.dirichlet.atm

AtmGibbsQuerySampler allows sampling from known markov states, i.e., the model of an author-corpus, which can be used to predict the topics of query documents.

AtmGibbsQuerySampler(AtmMarkovState, ExtLdaConfiguration, Random, boolean) - Constructor for class org.knowceans.dirichlet.atm.AtmGibbsQuerySampler

Initialise the gibbs sampler with a known markov state (for querying).

AtmGibbsSampler - Class in org.knowceans.dirichlet.atm

Gibbs sampler for estimating the best assignments of topics for words and authors of documents in a corpus.

AtmGibbsSampler() - Constructor for class org.knowceans.dirichlet.atm.AtmGibbsSampler

For subclasses who know what they do...

AtmGibbsSampler(int[][], int, int[][], int, double, double, int, int) - Constructor for class org.knowceans.dirichlet.atm.AtmGibbsSampler

Initialise the Gibbs sampler with data and standard values.

AtmGibbsSampler(AmqCorpus, ExtLdaConfiguration) - Constructor for class org.knowceans.dirichlet.atm.AtmGibbsSampler

Initialise the corpus with

AtmGibbsSampler(AmqCorpus, ExtLdaConfiguration, Random) - Constructor for class org.knowceans.dirichlet.atm.AtmGibbsSampler

Initialise the corpus with

AtmGibbsSampler(AtmMarkovState, ExtLdaConfiguration, Random) - Constructor for class org.knowceans.dirichlet.atm.AtmGibbsSampler

Initialise the sampler with an existing state.

AtmGibbsSampler(AmqCorpus, AtmMarkovState, ExtLdaConfiguration, Random) - Constructor for class org.knowceans.dirichlet.atm.AtmGibbsSampler

Initialise the sampler with an existing state.

AtmMarkovState - Class in org.knowceans.dirichlet.atm

AtmMarkovState represents the state of the gibbs sampler of the lda process used for estimating unknown documents (word vectors).

AtmMarkovState() - Constructor for class org.knowceans.dirichlet.atm.AtmMarkovState

Initialise markov state for loading or setting by parameters (subclasses only).

AtmMarkovState(String) - Constructor for class org.knowceans.dirichlet.atm.AtmMarkovState

Set up the markov chain from a file.

AtmMarkovState(AtmMarkovState) - Constructor for class org.knowceans.dirichlet.atm.AtmMarkovState

Copy constructor that copies all internal fields from state to this.

AtmMarkovState(int[][], int, int[][], int, int[][], int, int[][]) - Constructor for class org.knowceans.dirichlet.atm.AtmMarkovState

Initialise the object from the data given.

atmq - Variable in class org.knowceans.dirichlet.atm.AtmQueryClient

AtmQueryClient - Class in org.knowceans.dirichlet.atm

LdaQueryClient is the central class for querying lda parameter sets.

AtmQueryClient(String, String) - Constructor for class org.knowceans.dirichlet.atm.AtmQueryClient

atmstate - Variable in class org.knowceans.dirichlet.atm.AtmGibbsSampler

State variables of the Lda gibbs sampler.

atmstateq - Variable in class org.knowceans.dirichlet.atm.AtmGibbsQuerySampler

stateq contains the query documents.

atmt - Variable in class org.knowceans.dirichlet.atm.AtmQueryClient

AtmTopicsConverter - Class in org.knowceans.corpus.analysis

ActorMediaTopicAnalyser analyses the results of an LS-AMQ run.

AtmTopicsConverter() - Constructor for class org.knowceans.corpus.analysis.AtmTopicsConverter

AtmTopicSimilarities - Class in org.knowceans.dirichlet.atm

FmLdaSimilarities calculates similarities between term and documents, both known and unknown.

AtmTopicSimilarities(String, boolean, boolean, boolean, boolean) - Constructor for class org.knowceans.dirichlet.atm.AtmTopicSimilarities

Construct an LdaSimilaritiesCps object with path bases and action indicators for terms and documents processing

AtmTopicSimilarities(AtmGibbsSampler, boolean, boolean, boolean, boolean) - Constructor for class org.knowceans.dirichlet.atm.AtmTopicSimilarities

Initialise topic similarities using an existing lda gibbs sampler, whose phi and theta values are shared.

authorAuthors(int, boolean, int) - Method in class org.knowceans.dirichlet.atm.AtmTopicSimilarities

Get the most similar authors for the author.

AuthorData - Class in org.knowceans.corpus.parsers.nips

AuthorData collects author data from the NIPS bibtex entries

AuthorData(String) - Constructor for class org.knowceans.corpus.parsers.nips.AuthorData

authorQueries(String, String[]) - Method in class org.knowceans.dirichlet.atm.AtmQueryClient

Find authors for the queries array.

authors - Variable in class org.knowceans.corpus.parsers.igdbib.IgdDocument

authors - Variable in class org.knowceans.corpus.parsers.nips.NipsDocument

authors - Variable in class org.knowceans.corpus.parsers.nips.NipsExtractor.Entry

authors - Variable in class org.knowceans.corpus.xpert.XptDocument

AuthorTermCorpus - Class in org.knowceans.corpus.xpert

AuthorTermCorpus

AuthorTermCorpus() - Constructor for class org.knowceans.corpus.xpert.AuthorTermCorpus

AuthorTermCorpus(ICategories) - Constructor for class org.knowceans.corpus.xpert.AuthorTermCorpus