qtl (version 0.85-4)

top.errorlod: List genotypes with highest error LOD values

Description

Pulls from the output of calc.errorlod those genotypes with error LOD scores above a specified cutoff.

Usage

top.errorlod(cross, chr, cutoff=2, msg=TRUE)

Arguments

cross

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

chr

A vector specifying for which chromosomes the error LOD scores should be inspected.

cutoff

Only those genotypes with error LOD scores above this cutoff will be listed.

msg

If TRUE, print a message if there are no apparent errors.

Value

• A matrix with 4 columns, whose rows correspond to the genotypes that are possibly in error. The four columns give the chromosome number, individual number, marker name, and error LOD score.

See Also

calc.errorlod, plot.errorlod, find.errors, plot.errors

Examples

data(fake.f2)
fake.f2 <- calc.genoprob(fake.f2)
fake.f2 <- calc.errorlod(fake.f2)
top.errorlod(fake.f2,c(5,13),3)