bppInputes: bppInputs

In dmacguigan/gdiPipeline: Calcualte GDI for All Possible Species in a Phylogeny

bppInputs

Description

Generates input directories and CTL files for BPP Test

Usage

bppInputs(x)

Arguments

wd	path for working directory
tree	maximally split tree in newick format
mapping	txt file, one column with tip names, one column with corresponding species names
priors	tab delimited file, one line per combination of priors with priors in the following order: tau_alpha tau_beta theta_alpha theta_beta
heredity	heredity file for loci, see BPP documentation
loci	loci file, see BPP documentation
ctl	BPP template ctl file created by BPPCtlTemplate function
nloci	number of loci
threads	number of threads for BPP
nreps	number of replicate runs for each model and prior combination

Examples

##---- Should be DIRECTLY executable !! ----
##-- ==>  Define data, use random,
##--	or do  help(data=index)  for the standard data sets.

## The function is currently defined as
function (x)
{
  }

dmacguigan/gdiPipeline documentation built on Oct. 31, 2023, 10:30 a.m.