MMLoess-class {MareyMap} | R Documentation |
Class "MMLoess". Interpolation method plug-in for MareyMap
Description
This packages provides an interpolation method that estimates the recombination rates using loess
.
For more details on how this method works, see loess
.
Objects from the Class
Objects can be created by calls of the form new("MMLoess", ...)
or simply by calling MMLoess()
.
Slots
span
:Object of class
"numeric"
, parameters that controls the degree of smoothing.degree
:Object of class
"integer"
, the degree of the polynomials to be used, up to 2.model
:Object of class
"ANY"
name
:Object of class
"character"
, name of the interpolation.color
:Object of class
"character"
, color of the interpolation on the map.physicalPositions
:Object of class
"vector"
, physical positions of the markers of the map on which the interpolation is calculated.rates
:Object of class
"vector"
, the local estimation of the recombination rate at the position of each markers.visible
:Object of class
"logical"
, whether the interpolation should be plotted or not.persistent
:Object of class
"logical"
, whether the interpolation should be saved along with the map in the text file
Extends
Class "Interpolation"
, directly.
Methods
- createOrder
signature(object = "MMLoess")
: seeInterpolation-class
.- degree<-
signature(object = "MMLoess")
: changes the degree of the polynomials.- degree
signature(object = "MMLoess")
: returns the degree of the polynomials.- interpolate
signature(object = "MMLoess", map = "MareyMap")
: seeInterpolation-class
.- plotModel
signature(object = "MMLoess")
: seeInterpolation-class
.- plotRate
signature(object = "MMLoess")
: seeInterpolation-class
.- query
signature(object = "MMLoess", pos = "numeric")
: seeInterpolation-class
.- span<-
signature(object = "MMLoess")
: changes the value of the span.- span
signature(object = "MMLoess")
: returns the value of the span.- userParam
signature(object = "MMLoess")
: seeInterpolation-class
.
Author(s)
Aurélie Siberchicot aurelie.siberchicot@univ-lyon1.fr and Clément Rezvoy
See Also
Examples
data(Homo_sapiens_male)
chr7 <- Homo_sapiens_male[["Chromosome 07"]]
itr1 <- MMLoess()
color(itr1) <- "red"
span(itr1) <- 0.05
chr7 <- chr7 + itr1