create_pff_pir_params: Create a 'pir_params' with PFFs

In richelbilderbeek/peregrine: Work With The Groninger Peregrine Computer Cluster

Create a pir_params with PFFs

Description

Create a pir_params with PFFs

Usage

create_pff_pir_params(
  alignment_params,
  twinning_params = NA,
  experiments = list(pirouette::create_experiment()),
  error_measure_params = pirouette::create_error_measure_params(),
  evidence_filename = NA,
  verbose = FALSE
)

Arguments

alignment_params	parameters for creating an alignment, as can be created by create_alignment_params
twinning_params	parameters for creating a twin tree, as can be created by create_twinning_params
experiments	a list of one or more pirouette experiments, as can be created by create_experiment. If more than one experiment is provided and a "generative" experiment is part of them, the "generative" one has to be the first in the list.
error_measure_params	parameters to set how the error between given tree and inferred trees in measure, as can be created by create_error_measure_params
evidence_filename	filename to store the estimated evidences (aka marginal likelihoods)
verbose	give more output

Author(s)

Richèl J.C. Bilderbeek

richelbilderbeek/peregrine documentation built on Jan. 3, 2024, 7:42 p.m.