get_allele_hmm_s3 {hahmmr} | R Documentation |
Make a 3-state allele HMM - allow transitions to netural state
Description
Make a 3-state allele HMM - allow transitions to netural state
Usage
get_allele_hmm_s3(pAD, DP, R, p_s, t, theta_min, gamma = 20, r = 0.015)
Arguments
pAD |
integer vector Paternal allele counts |
DP |
integer vector Total alelle counts |
p_s |
numeric vector Phase switch probabilities |
t |
numeric Transition probability between haplotype states |
theta_min |
numeric Haplotype imbalance |
gamma |
numeric Overdispersion in the allele-specific expression |
r |
numeric Variant mapping bias |
Value
HMM object
[Package hahmmr version 1.0.0 Index]