resamp_galax: Builds all input files to run all analyses from resamp_bayes...

In diegosasso/ontobayes: Ontology-aware Bayesian Phylogenetic Information Analysis of Morphological Data

Builds all input files to run all analyses from resamp_bayes in Galax.

Description

Builds all input files to run all analyses from resamp_bayes in Galax.

Usage

resamp_galax(
  roots = roots,
  nsamp = 100,
  runs = 4,
  burnin = 251,
  OS = "windows",
  foldername = "resamp",
  filename = "galaxscript"
)

Arguments

roots	character, a named vector with the ontology IDs of the anatomical data subsets to produce MrBayes NEXUS files. IDs and names should match those in the second and third columns of the ids data.frame, respectively.
nsamp	integer, sets the number of samples for the resampling analysis.
runs	integer, sets the number of independent runs of mcmc in the MrBayes commands block. Default is set to 2.
burnin	integer, sets the absolute number of trees as the burn-in for the mcmc. Default is set to 251.
OS	character, sets the operational system to produce batch files for. Options are "windows" and "unix". Default is set to "windows".
foldername	character name of the output folder with all MrBayes NEXUS files.
filename	character, name of the output file.

Value

All necessary input files, organized in the GALAX/INPUT/foldername folder,

diegosasso/ontobayes documentation built on May 3, 2022, 10:23 p.m.