read_maps: Read genetic maps

In mapfuser: Construct Consensus Genetic Maps and Estimate Recombination Rates

Description

Reads genetic maps in either delimited or JoinMap format. Maps are loaded to a mapfuser object.

Usage

read_maps(mapfiles = NULL, sep = NULL, header = TRUE, na.strings = "NA",
  type = c("delim", "JoinMap"), mapweights = NULL)

Arguments

mapfiles	List of filenames to read
sep	The field separator character, see read.delim
header	A logical value indicating whether the files contains the names of variable int the first line, see read.delim()
na.strings	How to interpret missing values? See read.delim()
type	Type of input data, either delimited file with columns "Marker", "LG", and "Position" or a JoinMap ".map" file.
mapweights	numeric vector mapweights

Value

A mapfuser object with the genetic maps listed under the raw_data slot. Chromosome identifiers are added to the config slot

Author(s)

Dennis van Muijen

Examples

fpath <- system.file("extdata", package="mapfuser")
maps <- list.files(fpath, pattern = "Col", full.names = TRUE)
MF.obj <- read_maps(mapfiles = maps, sep = ",", header = TRUE,
mapweights = rep(1,7), type = "delim")

mapfuser documentation built on Oct. 10, 2017, 5:07 p.m.