aligned topics across chains

aligned topics across chains

alignmentMatrix(
  theta,
  ps,
  K,
  iterUse = 1000,
  chain = 4,
  SampleID_name = "SampleID"
)

Arguments

theta

array. three dimensional array (iterations * samples * topic).
ps

phyloseq object.
K

integer. number of topics.
iterUse

integer. number of iterations used in each chain after subtracting warm-up samples.
chain

integer. number of chains used in MCMC.
SampleID_name

character. variable name that contains sample IDs.

Value

matrix. A matrix of topic assignment for each chain.