Automatated ion beam milling for cryo-electron microscopy sample preparation.
Project description
Overview
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.
Documentation
Install
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
autolamella_ui
To launch liftout related methods:
conda activate fibsem
autoliftout_ui
Citation
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 https://doi.org/10.1016/j.jsb.2020.107488.
See CITATION for more details.
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