PickET: Unsupervised particle picking protocol for cryo-electron tomograms

Python package to pick particles in cryo-electron tomograms in an unsupervised manner

Table of contents

1. Getting started
2. Usage instructions
   • Input for S1
   • How to run S1?
   • Obtaining particle cluster ID
   • Input for S2
   • How to run S2?

3. Understanding the outputs

4. Scripts for reproducing figures for the paper: evaluations.

5. Helper scripts for preprocessing the ground truth annotations: preprocessing ground truth.
6. Other useful helper scripts are provided: accessories.

Publication and Data

• Arvindekar, S., Golatkar, O., & Viswanath, S. (2025). PickET: An unsupervised method for localizing macromolecules in cryo-electron tomograms. bioRxiv. https://doi.org/10.1101/2025.08.20.671250
• Data is deposited in Zenodo

Information

Author(s): Shreyas Arvindekar, Shruthi Viswanath
Date: June 1st, 2025
License: CC BY-SA 4.0 This work is licensed under the Creative Commons Attribution-ShareAlike 4.0 International License.
Testable: Yes
Publications: Arvindekar, S., Golatkar, O., & Viswanath, S. (2025). PickET: An unsupervised method for localizing macromolecules in cryo-electron tomograms. bioRxiv. https://doi.org/10.1101/2025.08.20.671250