approx_phi_post: Laplace approximation of the posterior of expression fold...

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

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
)

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

Value

numeric MLE of phi and its standard deviation

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