emphasis_de: perform emphasis analysis using DE method

In franciscorichter/emphasis: Evolutionary Modeling on Phylogenetic Applications with Simulations and Importance Sampling

perform emphasis analysis using DE method

Description

perform emphasis analysis using DE method

Usage

emphasis_de(
  brts,
  num_iterations,
  num_points,
  max_missing,
  sd_vec,
  lower_bound,
  upper_bound,
  maxN = 10,
  max_lambda,
  disc_prop = 0.5,
  verbose = FALSE,
  num_threads = 1
)

Arguments

brts	branching times of tree to fit on
num_iterations	number of iterations of the DE algorithm
num_points	number of particles per iteration
max_missing	maximum number of missing trees
sd_vec	vector of initial values of standard deviation for perturbation
lower_bound	vector of lower bound values for parameters, used to populate the particles
upper_bound	vector of upper bound values for parameters, used to populate the particles
maxN	maximum number of tries per parameter combination before giving up
max_lambda	maximum value of lambda
disc_prop	proportion of particles retained per iteration
verbose	verbose output if TRUE
num_threads	number of threads

franciscorichter/emphasis documentation built on Feb. 19, 2024, 7:36 p.m.