Atomap

Note: Atomap was migrated from GitLab to GitHub in January 2025.

Webpage: https://atomap.org

Atomap is a Python library for analysing atomic resolution scanning transmission electron microscopy images. It relies on fitting 2-D Gaussian functions to every atomic column in an image, and automatically finding all the atomic planes with the largest spacings.

Installing

The easiest way is via the Anaconda Python distribution, and installing with:

conda install atomap -c conda-forge

It can also be installed via PyPI:

pip3 install atomap

More install instructions: https://atomap.org/install.html

Using

import atomap.api as am
sublattice = am.dummy_data.get_simple_cubic_sublattice()
sublattice.construct_zone_axes()
sublattice.refine_atom_positions_using_center_of_mass()
sublattice.plot()

More information on how to use Atomap: https://atomap.org/start_atomap.html