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markerlrt

General likelihood ratio test for association between marker pairs

Description

Calculate a LOD score for a general likelihood ratio test for each pair of markers, to assess their association.

Usage

markerlrt(cross)

Arguments

cross

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

Value

The input cross object is returned with a component, rf, added. This is a matrix of size (tot.mar x tot.mar). The diagonal contains the number of typed meioses per marker, the upper and lower triangles each contain the LOD scores.

Author(s)

Karl W Broman, broman@wisc.edu

See Also

Examples

data(badorder)
badorder <- markerlrt(badorder)
plotRF(badorder)
qtl

Tools for Analyzing QTL Experiments

v1.48-1
GPL-3
Authors
Karl W Broman <broman@wisc.edu> and Hao Wu, with ideas from Gary Churchill and Saunak Sen and contributions from Danny Arends, Robert Corty, Timothee Flutre, Ritsert Jansen, Pjotr Prins, Lars Ronnegard, Rohan Shah, Laura Shannon, Quoc Tran, Aaron Wolen, Brian Yandell, and R Core Team
Initial release
2021-03-24

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