Supplementary material for: Calibrating coordinate system alignment in a scanning transmission electron microscope using a digital twin.

Calibrating coordinate system alignment in a scanning transmission electron microscope using a digital twin. Supplementary material This deposition contains supplementary material for a paper on coordinate system calibration in 4D STEM. A preprint of the paper is available at https://arxiv.org/abs/2403.08538. Contents 20221025_154811.zip: Overfocused 4D STEM test dataset overfocus.sif: Apptainer image with complete software stack. apptainer run --writable overfocus.sif to execute. It starts a Jupyterlab instance with two notebooks, one to genreate test data and the other to perform the interactive adjustment. This documents the software version that was used for the figures in the paper. requirements.txt: Python package versions of dependencies in overfocus.sif. COM - Jupyter Notebook - Google Chrome 2023-01-25 12-40-07_processed.mp4: Screen capture video with explanation of the first live calibration with an early prototype. video description.docx: Explanation of the plots and adjustment process in the screen capture video. Microscope-Calibration.tar.gz: Repository archive of the software and examples for calibration in the version used in the paper. TemGym.tar.gz: Repository archive of TemGym Basic in the version used in the paper.