Calculate the roughness of the sample against length scale

Description

The calculation of the roughness against lengthscale is performed throught a FFT 2D calculation, PSD 2D calculation and a meshgrid of frequencies. RoughnessByLengthScale returns a data.table of roughnesses against length scales

Usage

RoughnessByLengthScale(AFMImage, AFMImagePSDAnalysis)

## S4 method for signature 'AFMImage'
RoughnessByLengthScale(AFMImage, AFMImagePSDAnalysis)

Arguments

Value

a data table of lenght scale (r) and roughness values (roughness)

• roughness: roughnesses

• r: length scales

• filename: fullfilename slot of the AFMImage

Author(s)

M.Beauvais

Examples

library(AFM)
library(ggplot2)

data("AFMImageOfNormallyDistributedHeights")
oneAFMImage<-AFMImageOfNormallyDistributedHeights
AFMImagePSDAnalysis<-AFMImagePSDAnalysis()
data<-RoughnessByLengthScale(oneAFMImage, AFMImagePSDAnalysis)
r<-roughness<-filename<-NULL
p1 <- ggplot(data, aes(x=r, y=roughness, colour= basename(filename)))
p1 <- p1 + geom_point()
p1 <- p1 + geom_line()
p1 <- p1 + ylab("roughness (nm)")
p1 <- p1 + xlab("lengthscale (nm)")
p1

Results

R version 3.3.1 (2016-06-21) -- "Bug in Your Hair"
Copyright (C) 2016 The R Foundation for Statistical Computing
Platform: x86_64-pc-linux-gnu (64-bit)

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Type 'demo()' for some demos, 'help()' for on-line help, or
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> library(AFM)
> png(filename="/home/ddbj/snapshot/RGM3/R_CC/result/AFM/RoughnessByLengthScale-methods.Rd_%03d_medium.png", width=480, height=480)
> ### Name: RoughnessByLengthScale
> ### Title: Calculate the roughness of the sample against length scale
> ### Aliases: RoughnessByLengthScale RoughnessByLengthScale,AFMImage-method
> 
> ### ** Examples
> 
> library(AFM)
> library(ggplot2)
> 
> data("AFMImageOfNormallyDistributedHeights")
> oneAFMImage<-AFMImageOfNormallyDistributedHeights
> AFMImagePSDAnalysis<-AFMImagePSDAnalysis()
> data<-RoughnessByLengthScale(oneAFMImage, AFMImagePSDAnalysis)
> r<-roughness<-filename<-NULL
> p1 <- ggplot(data, aes(x=r, y=roughness, colour= basename(filename)))
> p1 <- p1 + geom_point()
> p1 <- p1 + geom_line()
> p1 <- p1 + ylab("roughness (nm)")
> p1 <- p1 + xlab("lengthscale (nm)")
> p1
> 
> 
> 
> 
> 
> dev.off()
null device 
          1 
>