Man pages for nicolaroberts/hdp
Hierarchical Dirichlet Process for categorical count data

comp_categ_countsGet sample vs category counts for each component
comp_categ_distnGet mean distribution over data categories for each component
comp_cos_mergeGet cos.merge setting
comp_dp_countsGet sample vs component counts for each DP
comp_dp_distnGet mean distribution over components for each DP
cull_posterior_samplesCull early posterior samples from a hdpSampleChain object
dp_activateActivate DP nodes
dp_freezeFreeze DP nodes
example_data_hdpFake categorical count data
example_data_hdp_priorFake categorical count data with priors
example_known_priorsExample known priors
hdp_addconparamAdd concentration parameters to a hdpState object
hdp_adddpAdd DPs to a hdpState object
hdpBase-classhdpBase class for the base distribution
hdpConparam-classhdpConparam class for the DP concentration parameter/s
hdpDP-classhdpDP class for a DP node
hdp_extract_componentsExtract major components from the raw clusters
hdp_initInitialise a hdpState object
hdp_multi_chainGather multiple independent posterior sampling chains for the...
hdp_posteriorPosterior sampling chain across activated DPs.
hdp_prior_initInitialise a HDP structure incorporating prior knowledge
hdp_quick_initInitialise a simple, default HDP structure
hdpSampleChain-classhdpSampleChain class for posterior samples off one MCMC chain
hdpSampleMulti-classhdpSampleMulti class for multiple independent hdpSampleChain...
hdp_setdataAssign data to DP nodes in a hdpState object
hdpState-classhdpState class for a Hierarchical Dirichlet Process in one...
lusc_countLung squamous cell carcinoma mutation data
lusc_multiPosterior sampling chains for LUSC data, conditional on...
mut_countCancer mutation count data
mut_example_chainPosterior sampling chain with cancer mutation data
mut_example_multiMultiple posterior sampling chains with cancer mutation data
numcompGet number of extracted components
plotchainDiagnostic plots for HDP posterior sampling chain
plotcompPlot extracted components
prop.exGet proportion of dataset explained (on average)
nicolaroberts/hdp documentation built on Nov. 30, 2017, 6:30 a.m.