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Simulate missing genotype data by removing some genotype data from the cross object
simulatemissingdata(cross, percentage = 5)
An object of class cross with percentage
cross
percentage
An object of class cross. See read.cross for details.
read.cross
How much of the genotype data do we need to randomly drop?
Danny Arends danny.arends@gmail.com
The MQM tutorial: https://rqtl.org/tutorials/MQM-tour.pdf
MQM - MQM description and references
MQM
mqmscan - Main MQM single trait analysis
mqmscan
mqmscanall - Parallellized traits analysis
mqmscanall
mqmaugment - Augmentation routine for estimating missing data
mqmaugment
mqmautocofactors - Set cofactors using marker density
mqmautocofactors
mqmsetcofactors - Set cofactors at fixed locations
mqmsetcofactors
mqmpermutation - Estimate significance levels
mqmpermutation
scanone - Single QTL scanning
scanone
data(multitrait) multitrait <- fill.geno(multitrait) multimissing5 <- simulatemissingdata(multitrait,perc=5) perc <- (sum(nmissing(multimissing5))/sum(ntyped(multimissing5)))
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