mkGenABELtped: generate a PLINK TPED file for GenABEL

In Mega2R: Accessing and Processing a 'Mega2' Genetic Database

generate a PLINK TPED file for GenABEL

Description

Generate a PLINK TPED file from the specified Mega2 SQLite database. The file is named "prefix".tped If the markers argument is.null(), the entire envir$markers set is include; otherwise the markers argument MUST be a subset of the envir$markers data.frame – same columns, but fewer rows.

Usage

mkGenABELtped(prefix, markers = NULL, mapno = 0, envir)

Arguments

prefix	prefix for .tped file name
markers	markers selected to be in output file
mapno	specify which map index to use for genetic distances
envir	'environment' containing SQLite database and other globals

Value

None

Examples

## Not run: 
db = system.file("exdata", "seqsimm.db", package="Mega2R")
ENV = read.Mega2DB(db)
mkGenABELtped("foo", NULL, 0, ENV)

## End(Not run)

Mega2R documentation built on May 29, 2024, 1:14 a.m.