smfishHmrf.hmrfem.multi.save: Save the HMRF result

In smfishHmrf: Hidden Markov Random Field for Spatial Transcriptomic Data

Description

This function assumes that HMRF has been run via smfishHmrf.hmrfem.multi, smfishHmrf.hmrfem.multi.it or smfishHmrf.hmrfem.multi.it.min function. It assumes the results have been generated. This function saves the results of each beta to the output directory. It will return void.

Usage

smfishHmrf.hmrfem.multi.save(name, outdir, beta, tc.hmrfem, k)

Arguments

name	name for this run (eg test)
outdir	output directory
beta	beta to save
tc.hmrfem	the result of running of hmrfem on single beta (from smfishHmrf.hmrfem.multi)
k	number of clusters

Examples

data(seqfishplus)
s <- seqfishplus
tc.hmrfem<-smfishHmrf.hmrfem.multi(s$y, s$nei, s$numnei, s$blocks, beta=28,
    mu=s$mu, sigma=s$sigma, err=1e-7, maxit=50, verbose=TRUE, dampFactor=s$damp,
    tolerance=1e-5)
smfishHmrf.hmrfem.multi.save(name="test", outdir=tempdir(), beta=28, tc.hmrfem=tc.hmrfem, k=9)

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