Retrieving groups of traits after clustering
Retrieving groups of clustered traits from the output of mqmplot.clusteredheatmap.
groupclusteredheatmap(cross, clusteredheatmapresult, height)
cross |
An object of class |
clusteredheatmapresult |
Resultint dendrogram object from |
height |
Height at which to 'cut' the dendrogram, a higher cut-off gives less but larger groups.
Height represents the maximum distance between two traits clustered together using hclust. the 'normal'
behaviour of bigger groups when using a higher heigh cut-off depends on the tree stucture and the amount
of traits clustered using |
A list containing groups of traits which were clustered together with a distance less that height
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) # impute missing genotype data result <- mqmscanall(multitrait, logtransform=TRUE) cresults <- mqmplot.clusteredheatmap(multitrait,result) groupclusteredheatmap(multitrait,cresults,10)
Please choose more modern alternatives, such as Google Chrome or Mozilla Firefox.