hahmmr (version 1.0.0)

approx_phi_post: Laplace approximation of the posterior of expression fold change phi

Description

Laplace approximation of the posterior of expression fold change phi

Usage

approx_phi_post(
  Y_obs,
  lambda_ref,
  d,
  alpha = NULL,
  beta = NULL,
  mu = NULL,
  sig = NULL,
  lower = 0.2,
  upper = 10,
  start = 1
)

Value

numeric MLE of phi and its standard deviation

Arguments

Y_obs

numeric vector Gene expression counts

lambda_ref

numeric vector Reference expression levels

d

numeric Total library size

alpha

numeric Shape parameter of the gamma distribution

beta

numeric Rate parameter of the gamma distribution

mu

numeric Mean of the normal distribution

sig

numeric Standard deviation of the normal distribution

lower

numeric Lower bound of phi

upper

numeric Upper bound of phi

start

numeric Starting value of phi