Skip to content

@teamtomo teamtomo

Change the repository type filter

All

    Repositories list

    58 repositories

    • teamtomo.github.io

      Public
      teamtomo.org website
      CSS
      •4•1•1•0•Updated Feb 15, 2026Feb 15, 2026

    • ttsim3d

      Public
      Simulate a 3D scattering potentials from PDB files
      Python
      •
      BSD 3-Clause "New" or "Revised" License
      •3•1•2•2•Updated Feb 14, 2026Feb 14, 2026

    • dynamotable

      Public
      Dynamo table files in Python as pandas dataframes
      Python
      •
      BSD 3-Clause "New" or "Revised" License
      •2•4•0•1•Updated Feb 13, 2026Feb 13, 2026

    • mdocfile

      Public
      SerialEM mdoc files as pandas dataframes
      Roff
      •
      BSD 3-Clause "New" or "Revised" License
      •10•14•2•0•Updated Feb 4, 2026Feb 4, 2026

    • torch-fourier-filter

      Public
      Fourier space filters for 2D/3D data in PyTorch
      Python
      •
      BSD 3-Clause "New" or "Revised" License
      •3•3•0•0•Updated Feb 1, 2026Feb 1, 2026

    • teamtomo

      Public
      modular Python packages for cryo-EM and cryo-ET
      Python
      •
      BSD 3-Clause "New" or "Revised" License
      •2•9•4•0•Updated Jan 28, 2026Jan 28, 2026

    • torch-cubic-spline-grids

      Public
      Cubic spline interpolation on multidimensional grids in PyTorch
      Python
      •
      Other
      •7•34•3•3•Updated Jan 19, 2026Jan 19, 2026

    • torch-ctf

      Public
      CTF functions for cryo-EM in torch
      Python
      •
      BSD 3-Clause "New" or "Revised" License
      •0•4•0•0•Updated Jan 16, 2026Jan 16, 2026

    • torch-segment-tomogram-boundaries

      Public
      Python
      •
      BSD 3-Clause "New" or "Revised" License
      •1•2•0•0•Updated Jan 15, 2026Jan 15, 2026

    • torch-motion-correction

      Public
      Motion estimation and correction for cryo-EM images in PyTorch
      Python
      •
      BSD 3-Clause "New" or "Revised" License
      •1•6•0•1•Updated Jan 13, 2026Jan 13, 2026

    • torch-so3

      Public
      Sample SO(3) space in PyTorch
      Python
      •
      BSD 3-Clause "New" or "Revised" License
      •2•5•0•0•Updated Jan 10, 2026Jan 10, 2026

    • torch-fourier-slice

      Public
      Fourier slice extraction/insertion in PyTorch
      Python
      •
      BSD 3-Clause "New" or "Revised" License
      •4•5•5•0•Updated Jan 7, 2026Jan 7, 2026

    • torch-grid-utils

      Public
      Grid utilities for 2D/3D image manipulations in PyTorch
      Python
      •
      BSD 3-Clause "New" or "Revised" License
      •3•1•0•1•Updated Jan 2, 2026Jan 2, 2026

    • torch-structure-manipulation

      Public
      A python package to extract bonding environments from cif files and perform a few basic structure transformation (centering at a desired point, translation, rot…
      Python
      •
      BSD 3-Clause "New" or "Revised" License
      •1•0•4•1•Updated Dec 24, 2025Dec 24, 2025

    • torch-tiltxcorr

      Public
      Coarse tilt series alignment in PyTorch
      Python
      •
      BSD 3-Clause "New" or "Revised" License
      •3•4•2•0•Updated Dec 18, 2025Dec 18, 2025

    • torch-multislice

      Public
      0•0•0•0•Updated Dec 18, 2025Dec 18, 2025

    • torch-calculate-electrostatic-potential

      Public
      0•0•0•0•Updated Dec 18, 2025Dec 18, 2025

    • torch-affine-utils

      Public
      Utilities for affine transforms of 2d/3d coordinates in PyTorch
      Python
      •
      BSD 3-Clause "New" or "Revised" License
      •2•0•0•0•Updated Dec 17, 2025Dec 17, 2025

    • alnfile

      Public
      AreTomo aln file IO in Python
      Python
      •
      BSD 3-Clause "New" or "Revised" License
      •1•3•0•3•Updated Dec 15, 2025Dec 15, 2025

    • torch-tomogram

      Public
      (sub-)Tomogram reconstruction, subtilt extraction for cryo-ET.
      Python
      •
      BSD 3-Clause "New" or "Revised" License
      •2•4•8•4•Updated Dec 15, 2025Dec 15, 2025

    • torch-segment-membranes-3d

      Public
      Semantic segmentation of membranes in cryo-ET data using a pre-trained network
      Python
      •
      BSD 3-Clause "New" or "Revised" License
      •1•4•1•4•Updated Dec 15, 2025Dec 15, 2025

    • teamtomo-runner-test

      Public
      Python
      •
      BSD 3-Clause "New" or "Revised" License
      •0•0•0•2•Updated Dec 15, 2025Dec 15, 2025

    • etomofiles

      Public
      Etomo metadata IO in Python
      Python
      •
      BSD 3-Clause "New" or "Revised" License
      •1•0•3•2•Updated Dec 15, 2025Dec 15, 2025

    • torch-refine-tilt-axis-angle

      Public
      Tilt-axis angle optimization for tilt series using common lines in PyTorch
      Python
      •
      BSD 3-Clause "New" or "Revised" License
      •1•0•2•1•Updated Dec 10, 2025Dec 10, 2025

    • torch-transform-image

      Public
      Real space transformations of 2D/3D images in PyTorch
      Python
      •
      BSD 3-Clause "New" or "Revised" License
      •2•4•1•1•Updated Dec 9, 2025Dec 9, 2025

    • mmdf

      Public
      macromolecular structure files (.pdb/.mmCIF) as pandas DataFrames
      Python
      •
      BSD 3-Clause "New" or "Revised" License
      •3•9•0•0•Updated Dec 6, 2025Dec 6, 2025

    • eerfile

      Public
      Read electron event representation (EER) files in Python
      Python
      •
      BSD 3-Clause "New" or "Revised" License
      •1•8•3•0•Updated Nov 25, 2025Nov 25, 2025

    • tttsa

      Public
      Automated tilt-series alignment for cryo-ET in PyTorch
      Python
      •
      BSD 3-Clause "New" or "Revised" License
      •1•2•7•2•Updated Nov 24, 2025Nov 24, 2025

    • torch-subpixel-crop

      Public
      Crop 2D/3D images with subpixel precision in PyTorch
      Python
      •
      BSD 3-Clause "New" or "Revised" License
      •1•3•3•1•Updated Nov 24, 2025Nov 24, 2025

    • torch-fourier-shell-correlation

      Public
      Calculate the Fourier shell correlation in PyTorch
      Python
      •
      BSD 3-Clause "New" or "Revised" License
      •1•4•1•2•Updated Nov 24, 2025Nov 24, 2025