A Hidden Markov Model for high throughput genotyping arrays

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Documentation for package ‘VanillaICE’ version 1.10.0

Help Pages

hmm Application of the Viterbi algorithm to copy number and/or genotype data.
hmm.setup Wrapper for computing emission and transition probabilities needed for fitting the hidden Markov model.
locusLevelData Basic data elements required for the HMM
robustSds Calculate robust estimates of the standard deviation
viterbi Application of the Viterbi algorithm to copy number and/or genotype data.