Choosing a type of a sample material Data processing

Characteristic length

Liquid environment or vacuum environment?

Computation time

Finishing the solver selection

SPM simulator: high polymers and soft matters (011a)

In this page, we recommend you GeoAFM as a solver that simulates AFM images of high polymers and soft matters under micron scale in air environment within one minute.

In this page, we suppose that the sample material is a high polymer or a soft matter.
However, we can apply a method discussed here to organic compounds, metals, semiconductors, and non-organic compounds, as well.

We recommend you the following simulator:

GeoAFM: the geometrical mutual AFM simulator Advantages of the GeoAFM are as follows: The GeoAFM works as a kind of a rapid three-way data processor, so that it reconstructs the one out of the other two among three geometrical elements, a tip, a sample material and its AFM image, in less than one minute. The GeoAFM provides simulation results using only geometrical information and relative positional relationship between the tip and the sample. Thus, GeoAFM does not consider van der Waals force between the tip and the sample and neglects their deformation.

	Experimental AFM image data
Structural data of a surface of the sample		Structural data of the tip

To perform the above simulation, you need to prepare structural data of the sample material.
Protein Data Bank http://www.rcsb.org/pdb/home/home.do provides you with structural data of various proteins as files with pdb format.
Using these structural data, you can carry out simulations with ease.

If you cannot find a simulation that you want to perform from the above list or if you do not know how to prepare structural data of your sample material, please contact us by e-mail.
When you send an e-mail to us, a string of characters is put into a subject of the e-mail automatically.
This string tells us at which stage of the simulation you have a trouble.

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