qtl: geno.crosstab – R documentation

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qtl

geno.crosstab

Create table of two-locus genotypes

Description

Create a cross tabulation of the genotypes at a pair of markers.

Usage

geno.crosstab(cross, mname1, mname2, eliminate.zeros=TRUE)

Arguments

`cross`	An object of class `cross`. See `read.cross` for details.
`mname1`	The name of the first marker (as a character string). (Alternatively, a vector with the two character strings, in which case `mname2` should not be given.)
`mname2`	The name of the second marker (as a character string).
`eliminate.zeros`	If TRUE, don't show the rows and columns that have no data.

Value

A matrix containing the number of individuals having each possible pair of genotypes. Genotypes for the first marker are in the rows; genotypes for the second marker are in the columns.

Author(s)

Karl W Broman, broman@wisc.edu

Examples

data(hyper)
geno.crosstab(hyper, "D1Mit123", "D1Mit156")
geno.crosstab(hyper, "DXMit22", "DXMit16")
geno.crosstab(hyper, c("DXMit22", "DXMit16"))

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