MMSlidingWindow-class | R Documentation |
This package provides an interpolation method that estimates the recombination rates using a sliding window approach.
Objects can be created by calls of the form new("MMSlidingWindow", ...)
or using the method SlidingWindow()
.
size
:Object of class "integer"
, the size of the windows in base pairs
shift
:Object of class "integer"
, the distance in number of base pairs between the centers of two consecutive windows.
threshold
:Object of class "integer"
minimum number of markers in a window to perform the regression
results
:Object of class "vector"
position of the model curve estimated at the center f each window.
name
:Object of class "character"
see Interpolation-class
color
:Object of class "character"
see Interpolation-class
physicalPositions
:Object of class "vector"
see Interpolation-class
rates
:Object of class "vector"
see Interpolation-class
visible
:Object of class "logical"
see Interpolation-class
persistent
:Object of class "logical"
see Interpolation-class
geneticalDistances
:Class "Interpolation"
, directly.
signature(object = "MMSlidingWindow")
: see Interpolation-class
signature(object = "MMSlidingWindow", map = "MareyMap")
: see Interpolation-class
signature(object = "MMSlidingWindow")
: see Interpolation-class
signature(object = "MMSlidingWindow")
: see Interpolation-class
signature(object = "MMSlidingWindow", pos = "numeric")
: see Interpolation-class
signature(object = "MMSlidingWindow")
: updates the value of the parameter shift
signature(object = "MMSlidingWindow")
: returns the value of the parameter shift
signature(object = "MMSlidingWindow")
: updates the value of the parameter size
signature(object = "MMSlidingWindow")
: returns the value of the parameter size
signature(object = "MMSlidingWindow")
: updates the value of the parameter threshold
signature(object = "MMSlidingWindow")
: returns the value of the parameter threshold
signature(object = "MMSlidingWindow")
: see Interpolation-class
Aurélie Siberchicot aurelie.siberchicot@univ-lyon1.fr and Clément Rezvoy
Interpolation-class
data(Homo_sapiens_mean)
human7 <- Homo_sapiens_mean[["Chromosome 07"]]
itr1 <- MMSlidingWindow()
color(itr1) <- "red"
size(itr1) <- 5000000
shift(itr1) <- 1000000
human7 <- human7 + itr1
plot(human7)
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