mergeCross: Merge linkage groups of an 'qtl' cross object

In ASMap: Linkage Map Construction using the MSTmap Algorithm

Merge linkage groups of an qtl cross object

Description

Merges linkage groups of an qtl cross object from a user specified list.

Usage

mergeCross(cross, merge = NULL, gap = 5)

Arguments

cross	An qtl cross object with any class structure.
merge	A list with elements containing the linkage groups to be merged with each element named by the proposed linkage group name (see Examples).
gap	The cM gap to put between the merged map elements in the complete linkage group.

Details

This merging function allows you to perform multiple merges of two or more linkage groups in one call. Users should ensure linkage group names are correct and that proposed linkage group names do not already exist.

Value

The cross object is returned with identical class structure as the inputted cross object. The "geno" element should now contain merged linkage groups for the user defined merges.

Author(s)

Julian Taylor

References

Taylor, J., Butler, D. (2017) R Package ASMap: Efficient Genetic Linkage Map Construction and Diagnosis. Journal of Statistical Software, 79(6), 1–29.

See Also

breakCross

Examples

data(mapDH, package = "ASMap")

mapDH1 <- breakCross(mapDH, split = list("4A" = "4A.m.8"))
pull.map(mapDH1)[["4A.1"]]
pull.map(mapDH1)[["4A.2"]]

mapDH2 <- mergeCross(mapDH1, merge = list("4A" = c("4A.1","4A.2")))
pull.map(mapDH2)[["4A"]]

ASMap documentation built on Nov. 1, 2024, 9:08 a.m.