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Supported Applications

PolNet

  • Description

    a Python package for generating synthetic datasets of the cellular context for Cryo-Electron Tomography.

  • Usage

    To list all executables provided by PolNet, run: $ sbgrid-list polnet Copy to clipboard

  • Usage Notes

    Polnet 1.1.2: It is necessary to manually download PolNet repo to your desired location and execute it from there: mkdir "your_desired_path_to_polnet" (NOT SBGrid path on /programs/x86_64-linux/polnet); cd "your_desired_path_to_polnet" ; git clone https://github.com/anmartinezs/polnet.git ; git switch --detach v1.1.2 #go to version tag ; Run PolNet from there (after sourcing sbgrid if it is not done automatically): polnet /path_to/all_features.yaml"

    Polnet 1.0.0: jupyter.polnet notebook /path/to/notebook

  • Installation

    Use the following command to install this title with the CLI client: $ sbgrid-cli install polnet Copy to clipboard Available operating systems: Linux 64

  • Primary Citation*

    A. Martinez-Sanchez, L. Lamm, M. Jasnin, and H. Phelippeau. 2024. Simulating the Cellular Context in Synthetic Datasets for Cryo-Electron Tomography. IEEE transactions on medical imaging. 43(11): 3742-3754.


    • *Full citation information available through

  • Keywords

    Electron Microscopy, Tomography

  • Default Versions

    Linux 64:  1.1.2 (3.2 GB)

  • Other Versions

      Linux 64:

      1.0.0 (1.6 GB)

  • Developers

    Harold Phelippeau, Lorenz Lamm, Antonio Martinez-Sanchez, Marion Jasnin, Francisco Aguilar Martinez

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