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    • appion

      Public
      Refactor of Appion that uses dask.
      Python
      00160Updated Dec 10, 2025Dec 10, 2025
    • Basic CLI for interacting with the Leginon database.
      Python
      0000Updated Dec 10, 2025Dec 10, 2025
    • sinedon

      Public
      Data model used by Appion and Leginon.
      Python
      0010Updated Dec 4, 2025Dec 4, 2025
    • A Makefile that packages up Appion and its dependencies into an AppImage.
      Makefile
      0000Updated Nov 20, 2025Nov 20, 2025
    • sbelong

      Public
      A CLI wrapper around sinfo that displays node/partition set membership in tabular form.
      Python
      0000Updated Nov 7, 2025Nov 7, 2025
    • Dockerfile and container image used to convert Python environments into standalone AppImages.
      Dockerfile
      0000Updated Oct 10, 2025Oct 10, 2025
    • leginon

      Public
      Python
      1000Updated Oct 2, 2025Oct 2, 2025
    • Slurm debian packages
      Makefile
      8000Updated Oct 1, 2025Oct 1, 2025
    • C
      0000Updated Sep 30, 2025Sep 30, 2025
    • Shell
      0000Updated Dec 3, 2024Dec 3, 2024
    • emhub

      Public
      Web application for monitor EM results
      Python
      6000Updated Aug 23, 2024Aug 23, 2024
    • xmipp

      Public
      Xmipp is a suite of image processing programs, primarily aimed at single-particle 3D electron microscopy.
      C++
      16000Updated Jul 18, 2024Jul 18, 2024
    • xmippCore

      Public
      Core functions for Xmipp and sharing with other packages (like Scipion)
      C++
      3000Updated Jul 16, 2024Jul 16, 2024
    • Scripts to migrate redmine tickets to github issues
      Python
      19000Updated Mar 14, 2024Mar 14, 2024
    • Docker image for leginon with simulated data for tutorial purpose
      PHP
      0100Updated Jan 3, 2024Jan 3, 2024
    • Fork of NVIDIA Ansible role w/ added support for Debian.
      Jinja
      70000Updated Oct 23, 2023Oct 23, 2023
    • ptolemy

      Public
      Public release of Ptolemy package for automated targeting of Cryo-EM grids
      Jupyter Notebook
      2000Updated Oct 6, 2023Oct 6, 2023
    • Data reduction script invoked by retentioner via the imshrink function.
      Python
      0000Updated Apr 5, 2023Apr 5, 2023
    • Python
      0000Updated Jan 30, 2023Jan 30, 2023
    • SEMCf

      Public archive
      Python code facility monitor system (temperatures, etc).
      Python
      0000Updated Sep 27, 2021Sep 27, 2021
    • appion-protomo

      Public archive
      A Docker-based distribution of Appion-Protomo.
      PHP
      41150Updated Oct 23, 2020Oct 23, 2020
    • topaz

      Public archive
      Pipeline for particle picking in cryo-electron microscopy images using convolutional neural networks trained from positive and unlabeled examples
      Jupyter Notebook
      70000Updated Sep 21, 2020Sep 21, 2020
    • SpotitonTR

      Public archive
      Code for Spotiton Time Resolve experiments
      C#
      0000Updated Aug 20, 2019Aug 20, 2019
    • fscupload

      Public archive
      Use a Django web application to calculate a 3D Fourier shell correlation remotely.
      Python
      1000Updated Feb 11, 2019Feb 11, 2019
    • imod_singularity

      Public archive
      A singularity container for IMOD.
      Shell
      1001Updated Aug 9, 2018Aug 9, 2018
    • 0000Updated Jul 24, 2018Jul 24, 2018
    • motioncor2-docker

      Public archive
      Instructions for building a CUDA 8.0-enabled Docker container to run MotionCor2_1.1.0.
      Shell
      0000Updated Jul 11, 2018Jul 11, 2018
    • Anisotropy

      Public archive
      These are programs that deal with anisotropy (both resolution and sampling)
      Python
      112240Updated Mar 16, 2018Mar 16, 2018
    • cuda

      Public archive
      Useful resources for learning CUDA and its Python variants.
      0000Updated Dec 14, 2017Dec 14, 2017
    • Tilted-Collection

      Public archive
      Tilted Single-Particle CryoEM Data Collection
      Python
      0000Updated May 15, 2017May 15, 2017