fastsimcoalsims_Par: fastsimcoalsims_Par Function to run fastsimcoalsims in...

In JeffWeinell/misc.wrappers: Miscellaneous Wrapper Functions for Spatial Population Genomics

fastsimcoalsims_Par Function to run fastsimcoalsims in parallel. This is modified from Paul Hime's function of the same name. Implemented in the function rundelimitR. Simulates the site frequency spectrum for a set of input models each defined by their .est and .tpl files.

Description

fastsimcoalsims_Par

Function to run fastsimcoalsims in parallel. This is modified from Paul Hime's function of the same name. Implemented in the function rundelimitR. Simulates the site frequency spectrum for a set of input models each defined by their .est and .tpl files.

Usage

fastsimcoalsims_Par(
  prefix,
  pathtofsc,
  nreps = 10000,
  wd = getwd(),
  ncores = 2,
  run.parallel = T
)

Arguments

prefix	Prefix used for .tpl and .est model files
pathtofsc	Path to the fastsimcoal2 executable
nreps	Number of replicate runs to do for each model. Default is 10000.
wd	Working directory. Default is to use the current working directory.
ncores	Number of cores to use
run.parallel	If simulations on different models should also be run in parallel. Default is TRUE. In some cases running in parallel causes weird issues and in such cases try changing this to FALSE.

Value

NULL. Results are written to working directory.

Examples

run_delimitR(vcf="PATH/TO/VCF",traitsfile="PATH/TO/TRAITSFILE")

JeffWeinell/misc.wrappers documentation built on Sept. 20, 2023, 12:42 p.m.