CRAN

afmToolkit 0.0.1

Functions for Atomic Force Microscope Force-Distance Curves Analysis

Released Apr 3, 2017 by Rafael Benitez

Dependencies

tibble 1.3.0 gridExtra 2.2.1 minpack.lm 1.2-1 dplyr 0.5.0 scales 0.4.1 DBI 0.6-1 ggplot2 2.2.1 assertthat 0.1

Set of functions for analyzing Atomic Force Microscope (AFM) force-distance curves. It allows to obtain the contact and unbinding points, perform the baseline correction, estimate the Young's modulus, fit up to two exponential decay function to a stress-relaxation / creep experiment, obtain adhesion energies. These operations can be done either over a single F-d curve or over a set of F-d curves in batch mode.

Installation

Maven

This package can be included as a dependency from a Java or Scala project by including the following your project's pom.xml file. Read more about embedding Renjin in JVM-based projects.

<dependencies>
  <dependency>
    <groupId>org.renjin.cran</groupId>
    <artifactId>afmToolkit</artifactId>
    <version>0.0.1-b5</version>
  </dependency>
</dependencies>
<repositories>
  <repository>
    <id>bedatadriven</id>
    <name>bedatadriven public repo</name>
    <url>https://nexus.bedatadriven.com/content/groups/public/</url>
  </repository>
</repositories>

View build log

Renjin CLI

If you're using Renjin from the command line, you load this library by invoking:

library('org.renjin.cran:afmToolkit')

Test Results

This package was last tested against Renjin 0.8.2442 on Sep 25, 2017.

• afmAdhesionEnergy-examples
• afmBaselineCorrection-examples
• afmContactPoint-examples
• afmDetachPoint-examples
• afmExpDecay-examples
• afmIndentation-examples
• afmReadJPK-examples
• afmReadJPKFolder-examples
• afmReadVeeco-examples
• afmReadVeecoFolder-examples
• afmYoungModulus-examples
• afmZeroPointSlope-examples
• afmdata-examples
• afmexperiment-examples
• plot.afmdata-examples
• windowedFit-examples

Source

View GitHub Mirror

Release History

• 0.0.1