calculateOmnidirectionalVariogram {AFM}

Calculate experimental omnidirectional semi-variogram

Description

calculateOmnidirectionalVariogram returns the semivariance calculated for all the directions calculate the experimental omnidirectional variogram of an AFMImage with the variogram function of the gstat package. The experimental semi-variogram is used to fit (find the best sill and range) the theoretical variogram models. With 512*512 images, it takes several minutes to calculate.

Usage

calculateOmnidirectionalVariogram(AFMImageVariogramAnalysis, AFMImage)

Arguments

AFMImageVariogramAnalysis

an AFMImageVariogramAnalysis to manage and store the result of variogram analysis

AFMImage

an AFMImage from Atomic Force Microscopy

Value

the semivariance calculated in all the directions

Author(s)

M.Beauvais

Examples

## Not run: 
library(AFM)
library(ggplot2)

data(AFMImageOfRegularPeaks)
variogramAnalysis<-AFMImageVariogramAnalysis(sampleFitPercentage=3.43/100)
avario<-AFM::calculateOmnidirectionalVariogram(AFMImageVariogramAnalysis= variogramAnalysis, 
                                               AFMImage= AFMImageOfRegularPeaks)
dist<-gamma<-NULL
p <- ggplot(avario, aes(x=dist, y=gamma))
p <- p + geom_point()
p <- p + geom_line()
p <- p + ylab("semivariance")
p <- p + xlab("distance (nm)")
p <- p + ggtitle("Experimental semivariogram")
p

## End(Not run)