viterbi_loh: Viterbi for clonal LOH detection

In numbat: Haplotype-Aware CNV Analysis from scRNA-Seq

Viterbi for clonal LOH detection

Description

Viterbi for clonal LOH detection

Usage

viterbi_loh(hmm, ...)

Arguments

hmm

HMM object; expect variables x (SNP count), snp_sig (snp rate standard deviation), pm (snp density for ref and loh states), pn (gene lengths), d (total expression depth), y (expression count), lambda_star (reference expression rate), mu (global expression mean), sig (global expression standard deviation), Pi (transition prob matrix), delta (prior for each state), phi (expression fold change for each state)

numbat documentation built on May 29, 2024, 1:29 a.m.