EQF.plot {QTLEMM} | R Documentation |
EQF plot
Description
Generate an EQF plot based on the result of the permutation process used to detect the QTL hotspot.
Usage
EQF.plot(result, plot.all = TRUE, plot.chr = TRUE, plot.main = TRUE)
Arguments
result |
list. The data list of the output from LOD.QTLdetect(), EQF.permu(), or Qhot.EQF(). |
plot.all |
logical. When set to TRUE, it directs the function to output one figure of the EQF values over the bins. |
plot.chr |
logical. When set to TRUE, it instructs the function to output the figures of the EQF values over the bins for each chromosome. |
plot.main |
logical of character. When set to TRUE, it will use the default title on the plot. When set to FALSE, it will be no title on the plot. Users can also use this argument to set their own title. |
Value
One or several EQF plots.
References
Wu, P.-Y., M.-.H. Yang, and C.-H. KAO 2021 A Statistical Framework for QTL Hotspot Detection. G3: Genes, Genomes, Genetics: jkab056. <doi: 10.1093/g3journal/jkab056>
See Also
LOD.QTLdetect
EQF.permu
Qhot.EQF
Examples
# load the example data
load(system.file("extdata", "LODexample.RDATA", package = "QTLEMM"))
# run and result
EQF.plot(LOD.QTLdetect.result)
EQF.plot(EQF.permu.result)