Statistics, Department of

The R Journal
Date of this Version
12-2017
Document Type
Article
Citation
The R Journal (December 2017) 9(2); Editor: Roger Bivand
Abstract
Atomic force microscopy (AFM) is widely used to measure molecular and colloidal inter actions as well as mechanical properties of biomaterials. In this paper the afmToolkit R package is introduced. This package allows the user to automatically batch process AFM force-distance and force-time curves. afmToolkit capabilities range from importing ASCII files and preprocessing the curves (contact point detection, baseline correction...) for finding relevant physical information, such as Young’s modulus, adhesion energies and exponential decay for force relaxation and creep experiments. This package also contains plotting, summary and feature extraction functions. The package also comes with several data sets so the user can test the aforementioned features with ease. The package afmToolkit eases the basic processing of large amount of AFM F-d/t curves at once. It is also flexible enough to easily incorporate new functions as they are needed and can be seen as a programming infrastructure for further algorithm development.
Included in
Numerical Analysis and Scientific Computing Commons, Programming Languages and Compilers Commons
Comments
Copyright 2017, The R Foundation. Open access material. License: CC BY 4.0