viterbi_joint_mat: Generalized viterbi algorithm for joint HMM, can handle...

In hahmmr: Haplotype-Aware Hidden Markov Model for RNA

Generalized viterbi algorithm for joint HMM, can handle multiple sets of observations

Description

Generalized viterbi algorithm for joint HMM, can handle multiple sets of observations

Usage

viterbi_joint_mat(hmm)

Arguments

hmm

HMM object; expect variables x (allele depth), d (total depth), y (expression count), l (cell total library size), lambda (reference expression rate), mu (global expression mean), sig (global expression standard deviation), logPi (log transition prob matrix), phi (expression fold change for each state), delta (prior for each state), alpha (alpha for each state), beta (beta for each state), states (states), p_s (phase switch probs)

Value

character vector; decoded states

hahmmr documentation built on Oct. 26, 2023, 1:08 a.m.