afmToolkit: an R Package for Automated AFM Force-Distance Curves Analysis

Rafael Benítez, Vicente,J. Bolós, José-Luis Toca-Herrera
2017 The R Journal  
Atomic force microscopy (AFM) is widely used to measure molecular and colloidal interactions 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
more » ... ulus, 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.
doi:10.32614/rj-2017-045 fatcat:4g5z23khmzcf3nfrblxulxi44a