synth_comm_from_counts: synth_comm_from_counts

In zdk123/SpiecEasi: Sparse Inverse Covariance for Ecological Statistical Inference

synth_comm_from_counts

Description

from count data (ex HMP) fit parameters to OTU margins and simulate a new community with those properties

Usage

synth_comm_from_counts(
  comm,
  mar = 2,
  distr,
  Sigma = cov(comm),
  params,
  n = nrow(comm),
  retParams = FALSE,
  ...
)

Arguments

comm	community: matrix of counts
mar	the sample margin of the community data matrix (1: rows, 2: cols)
distr	distribution to fit (see fitdistr)
Sigma	covariance structure (defaults to empirical cov of comm)
params	optionally supply already fitted parameters
n	number of samples (defaults to comm samples)
retParams	if TRUE, return the fitted parameters
...	additional parameters to parameter fitting

Value

community

zdk123/SpiecEasi documentation built on Oct. 20, 2023, 6:49 a.m.