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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
An object of class cross
. See read.cross
for details.
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
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
data(multitrait)
multitrait <- fill.geno(multitrait)
multimissing5 <- simulatemissingdata(multitrait,perc=5)
perc <- (sum(nmissing(multimissing5))/sum(ntyped(multimissing5)))
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