loadAdmixture: Read Admixture Output

In sa-lee/starmie: Population Structure Model Inference and Visualisation

Description

Read Admixture Output

Usage

loadAdmixture(qfile, pfile, logfile = NULL, bootstrap_bias = NULL,
  bootstrap_se = NULL)

Arguments

qfile	a valid Q file from ADMIXTURE
pfile	a corresponding P file from ADMXIXTURE
logfile	optional logfile from corresponding ADMIXTURE run
bootstrap_bias	optional file containing bias estimates for Q matrix
bootstrap_se	optional file containing standard error estiamtes for Q matrix

Value

an admix object containing the output of of an admixture run

Examples

qfin <- system.file("extdata/hapmap3_files", "hapmap3.2.Q", package = "starmie")
pfin <- system.file("extdata/hapmap3_files", "hapmap3.2.P", package = "starmie")
my_admix <- loadAdmixture(qfin, pfin)
# add log file
logfin <- system.file("extdata/hapmap3_files", "log2.out", package = "starmie")
my_admix <- loadAdmixture(qfin, pfin, logfile = logfin)

sa-lee/starmie documentation built on May 28, 2019, 11 a.m.