In thomasgredig/nanoscopeAFM: Load and Analyze Atomic Force Microscopy Data Files

knitr::opts_chunk$set(
  collapse = TRUE,
  comment = "#>"
)

library(nanoscopeAFM)
library(ggplot2)

Force versus Distance Curves

This example illustrates how to extract force versus distance spectroscopy data from Park AFM images:

f = AFM.getSampleImages('force')
a = AFM.import(f)
a = AFM.flatten(a)
plot(a) + labs(fill="z (nm)")

Spectroscopy data files are recognized as such:

AFM.dataType(a)

The file can be graphed like a regular AFM file, but additionally, it contains the spectroscopy data. Several channels are recorded:

AFM.specHeader(a)

The data from these channels is extracted as follows:

df = AFM.specData(a)
ggplot(df, aes(`Z Scan`, Force, col=factor(Point))) + 
  geom_point() + 
  theme_bw() +
  theme(legend.position = c(0.95,0.99),
        legend.justification = c(1,1))

thomasgredig/nanoscopeAFM documentation built on Jan. 4, 2023, 1:33 p.m.