smfishHmrf.hmrfem: smfishHmrf.hmrfem

In smfishHmrf: Hidden Markov Random Field for Spatial Transcriptomic Data

Description

HMRF for single variate normal distribution

Usage

smfishHmrf.hmrfem(
  y,
  neighbors,
  numnei,
  blocks,
  beta = 0.5,
  mu,
  sigma,
  err = 1e-04,
  maxit = 20,
  verbose
)

Arguments

y	gene expression matrix
neighbors	adjacency matrix between cells
numnei	an array of number of neighbors per cell
blocks	a list of cell colors for deciding the order of cell update
beta	the beta to try (smoothness parameter)
mu	an array of cluster mean
sigma	an array of cluster standard deviation
err	the error that is allowed between successive iterations
maxit	maximum number of iterations
verbose	TRUE or FALSE

Value

A list of prob, new mu, and new sigma after iterations finish

smfishHmrf documentation built on Jan. 13, 2021, 12:54 p.m.