qtl (version 1.39-5)

simulatemissingdata: Simulates missing genotype data

Description

Simulate missing genotype data by removing some genotype data from the cross object

Usage

simulatemissingdata(cross, percentage = 5)

Arguments

cross

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

percentage

How much of the genotype data do we need to randomly drop?

Value

• An object of class cross with percentage

See Also

% \input{"inst/docs/Sources/MQM/mqm/standard_seealso.txt"}
• The MQM tutorial:http://www.rqtl.org/tutorials/MQM-tour.pdf
• MQM- MQM description and references
• mqmscan- Main MQM single trait analysis
• mqmscanall- Parallellized traits analysis
• mqmaugment- Augmentation routine for estimating missing data
• mqmautocofactors- Set cofactors using marker density
• mqmsetcofactors- Set cofactors at fixed locations
• mqmpermutation- Estimate significance levels
• scanone- Single QTL scanning % -----^^ inst/docs/Sources/MQM/mqm/standard_seealso.txt ^^-----

Examples

data(multitrait)
multitrait <- fill.geno(multitrait)
multimissing5 <- simulatemissingdata(multitrait,perc=5)
perc <- (sum(nmissing(multimissing5))/sum(ntyped(multimissing5)))