mqmplot.permutations {qtl} | R Documentation |
Plotting routine to display the results from a permutation QTL scan. (the
output of mqmpermutation
)
mqmplot.permutations(permutationresult, ...)
permutationresult |
|
... |
Extra arguments passed to |
No value returned (plotting routine)
Danny Arends danny.arends@gmail.com , Rutger Brouwer
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
#Simulated F2 Population f2qtl <- c(3,15,1,0) # QTL at chromosome 3 data(map10) # Mouse genetic map f2cross <- sim.cross(map10,f2qtl,n=100,type="f2") # Simulate a F2 Cross f2cross <- calc.genoprob(f2cross) ## Not run: f2result <- mqmpermutation(f2cross, n.perm=1000, method="permutation") # Permutations to obtain significance threshold mqmplot.permutations(f2result) # Plot results