Entry: breaks
Aliases: breaks
Keywords: manip
Description: Identify breakpoints from the hidden Markov model predictions
URL: ../../../library/VanillaICE/html/breaks.html

Entry: copynumberEmission
Aliases: copynumberEmission
Keywords: methods
Description: Emission probabilities for copy number
URL: ../../../library/VanillaICE/html/copynumberEmission.html

Entry: genotypeEmission
Aliases: genotypeEmission
Keywords: methods
Description: Emission probabilities for di-allelic genotype calls
URL: ../../../library/VanillaICE/html/genotypeEmission.html

Entry: genotypeEmissionCrlmm
Aliases: genotypeEmissionCrlmm
Keywords: htest
Description: Estimate the emission probabilities using confidence scores from CRLMM
URL: ../../../library/VanillaICE/html/genotypeEmissionCrlmm.html

Entry: hmm
Aliases: hmm
Keywords: models
Description: Wrapper for fitting the HMM
URL: ../../../library/VanillaICE/html/hmm.html

Entry: locusLevelData
Aliases: locusLevelData
Keywords: datasets
Description: Basic data elements required for the HMM
URL: ../../../library/VanillaICE/html/locusLevelData.html

Entry: transitionProbability
Aliases: transitionProbability
Keywords: arith
Description: Compute the transition probability
URL: ../../../library/VanillaICE/html/transitionProbability.html

Entry: viterbi
Aliases: viterbi
Keywords: models
Description: viterbi algorithm
URL: ../../../library/VanillaICE/html/viterbi.html
