qtl (version 1.70)

pull.map: Pull out the genetic map from a cross

Description

Pull out the map portion of a cross object.

Usage

pull.map(cross, chr, as.table=FALSE)

Value

The genetic map: a list with each component containing the marker positions (in cM) for a chromosome. Each component has class

A or X according to whether it is an autosome or the X chromosome. The components are either vectors of marker positions or, for a sex-specific map, 2-row matrices containing the female and male marker locations. The map itself is given class map.

Arguments

cross

An object of class cross. See read.cross for details.

chr

Optional vector indicating the chromosomes to consider. This should be a vector of character strings referring to chromosomes by name; numeric values are converted to strings. Refer to chromosomes with a preceding - to have all chromosomes but those considered. A logical (TRUE/FALSE) vector may also be used.

as.table

If TRUE, return the genetic map as a table with chromosome assignments and marker names. If FALSE, return the map as a "map" object.

Author

Karl W Broman,

See Also

replace.map, plotMap, map2table

Examples

data(fake.f2)
map <- pull.map(fake.f2)
plot(map)