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Automatated ion beam milling for cryo-electron microscopy sample preparation.

Project description



AutoLamella is a python package for automated cryo-lamella preparation with focused ion beam milling. It is based on openFIBSEM, and currently supports the TESCAN Automation SDK and ThermoFisher AutoScript. Support for other FIBSEM systems is planned.


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Recommended Installation Guide

Create a new virtual environment from the Anaconda Prompt terminal:

conda create -n fibsem python=3.9 pip
conda activate fibsem
pip install autolamella 

Running Autolammela

Open the Anaconda Prompt terminal and run the following commands.

conda activate fibsem


To launch liftout related methods:

conda activate fibsem


If you find this useful, please cite our work.

Genevieve Buckley, Gediminas Gervinskas, Cyntia Taveneau, Hariprasad Venugopal, James C. Whisstock, Alex de Marco, Automated cryo-lamella preparation for high-throughput in-situ structural biology, Journal of Structural Biology, Volume 210, Issue 2, 2020

See CITATION for more details.

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