qtl (version 0.92-3)

summary.ripple: Print summary of ripple results

Description

Print marker orders, from the output of the function ripple, for which the log10 likelihood relative to the initial order is above a specified cutoff.

Usage

summary.ripple(object, lod.cutoff = -1, ...)

Arguments

object

An object of class ripple, the output of the function ripple.

lod.cutoff

Only marker orders with LOD score (relative to the initial order) above this cutoff will be displayed.

...

Ignored at this point.

Value

• An object of class summary.ripple, whose rows correspond to marker orders with likelihood within some cutoff of the initial order. If no marker order, other than the initial one, has likelihood within the specified range, the initial and next-best orders are returned.

See Also

ripple, est.map, est.rf

Examples

data(badorder)
rip2 <- ripple(badorder, 1, 2)
summary(rip2)

badorder <- switch.order(badorder, 1, rip2[2,])
rip2p <- ripple(badorder, 1, 2)
summary(rip2p)