csh.x.validation: csh.x.validation

In kdm9/constructhelpers: Helper's for gbradburd's conStruct

Description

csh.x.validation

Usage

csh.x.validation(
  freqs = NULL,
  data.partitions = NULL,
  geoDist,
  coords,
  prefix,
  K,
  n.reps = 8,
  n.iter = 10000,
  train.prop = 0.9,
  make.figs = FALSE,
  save.files = FALSE,
  ...
)

Arguments

freqs	Per-locality allele frequencies, see conStruct::conStruct()
data.partitions	Pre-computed data partitions, see conStruct::x.validation()
geoDist	Geographic distance matrix, see conStruct::conStruct()
prefix	File prefix for any output files, see conStruct::x.validation()
K	Vector of layers/ancestral pops. (e.g. 1:6)
n.reps	Number of replicate runs/mcmc chains
n.iter	Number of MCMC interations
train.prop	Proportion of SNPs to use for training vs test. typically 0.8-0.9
make.figs	Save plots to disk
save.files	Save intermediates to disk
coods	X/Y or Long/Lat coordiate matrix, see conStruct::conStruct()

Value

tibble with one row per MCMC run (so length(K) * n.reps * 2)

kdm9/constructhelpers documentation built on Feb. 14, 2021, 12:27 a.m.