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    36 repositories

    • ttsim3d

      Public
      Simulate a 3D scattering potentials from PDB files
      Python
      •
      BSD 3-Clause "New" or "Revised" License
      •2•1•0•0•Updated Feb 15, 2025Feb 15, 2025

    • torch-fourier-filter

      Public
      Fourier space filters for 2D/3D data in pyTorch
      Python
      •
      BSD 3-Clause "New" or "Revised" License
      •2•1•0•0•Updated Feb 15, 2025Feb 15, 2025

    • torch-so3

      Public
      Python
      •
      BSD 3-Clause "New" or "Revised" License
      •2•1•0•0•Updated Feb 11, 2025Feb 11, 2025

    • torch-angular-search

      Public
      Python
      •
      BSD 3-Clause "New" or "Revised" License
      •2•1•0•0•Updated Feb 6, 2025Feb 6, 2025

    • torch-image-lerp

      Public
      Linear interpolation and gridding for 2D and 3D images in PyTorch
      Python
      •
      BSD 3-Clause "New" or "Revised" License
      •3•2•0•0•Updated Feb 5, 2025Feb 5, 2025

    • mdocfile

      Public
      SerialEM mdoc files as pandas dataframes
      Roff
      •
      BSD 3-Clause "New" or "Revised" License
      •7•11•2•0•Updated Jan 30, 2025Jan 30, 2025

    • imodmodel

      Public
      IMOD model files as pandas dataframes in Python
      Python
      •
      Other
      •7•9•5•0•Updated Jan 30, 2025Jan 30, 2025

    • eerfile

      Public
      Read electron event representation (EER) files in Python
      Python
      •
      BSD 3-Clause "New" or "Revised" License
      •0•6•2•3•Updated Jan 16, 2025Jan 16, 2025

    • membrain-seg

      Public
      membrane segmentation in 3D for cryo-ET
      Python
      •
      Other
      •13•61•15•3•Updated Jan 13, 2025Jan 13, 2025

    • starfile

      Public
      STAR file I/O in Python
      Python
      •
      BSD 3-Clause "New" or "Revised" License
      •18•48•5•1•Updated Jan 10, 2025Jan 10, 2025

    • ttmask

      Public
      Mask creation CLI tool for cryo-EM/ET
      Python
      •
      BSD 3-Clause "New" or "Revised" License
      •3•3•3•1•Updated Dec 21, 2024Dec 21, 2024

    • yet-another-imod-wrapper

      Public
      Simple API for automated tilt-series alignment in IMOD
      Python
      •
      Other
      •2•7•1•0•Updated Dec 20, 2024Dec 20, 2024

    • mmdf

      Public
      macromolecular structure files (.pdb/.mmCIF) as pandas DataFrames
      Python
      •
      BSD 3-Clause "New" or "Revised" License
      •3•8•0•0•Updated Dec 16, 2024Dec 16, 2024

    • torch-fourier-rescale

      Public
      Rescale 2D and 3D images by Fourier padding/cropping in PyTorch
      Python
      •
      BSD 3-Clause "New" or "Revised" License
      •1•1•0•0•Updated Nov 19, 2024Nov 19, 2024

    • torch-cubic-spline-grids

      Public
      Cubic spline interpolation on multidimensional grids in PyTorch
      Python
      •
      Other
      •2•26•1•0•Updated Nov 19, 2024Nov 19, 2024

    • tttsa

      Public
      Automated tilt-series alignment for cryo-ET in PyTorch
      Python
      •
      BSD 3-Clause "New" or "Revised" License
      •1•2•7•0•Updated Nov 19, 2024Nov 19, 2024

    • torch-fourier-slice

      Public
      Fourier slice extraction/insertion in PyTorch
      Python
      •
      BSD 3-Clause "New" or "Revised" License
      •4•1•3•3•Updated Nov 19, 2024Nov 19, 2024

    • cryohub

      Public
      IO hub for Cryo-EM, Cryo-ET and subtomogram averaging data.
      Python
      •
      Other
      •5•9•0•1•Updated Nov 19, 2024Nov 19, 2024

    • torch-subpixel-crop

      Public
      Crop 2D/3D images with subpixel precision in PyTorch
      Python
      •
      BSD 3-Clause "New" or "Revised" License
      •0•2•1•0•Updated Nov 19, 2024Nov 19, 2024

    • torch-grid-utils

      Public
      Grid utilities for 2D/3D image manipulations in PyTorch
      Python
      •
      BSD 3-Clause "New" or "Revised" License
      •0•0•0•1•Updated Nov 18, 2024Nov 18, 2024

    • torch-fourier-shell-correlation

      Public
      Calculate the Fourier shell correlation in PyTorch
      Python
      •
      BSD 3-Clause "New" or "Revised" License
      •0•3•1•0•Updated Nov 18, 2024Nov 18, 2024

    • torch-fourier-shift

      Public
      Translate 2D/3D images by phase shifting Fourier transforms in PyTorch
      Python
      •
      BSD 3-Clause "New" or "Revised" License
      •0•1•0•0•Updated Nov 18, 2024Nov 18, 2024

    • ttfsc

      Public
      Python
      •
      BSD 3-Clause "New" or "Revised" License
      •1•5•0•2•Updated Nov 18, 2024Nov 18, 2024

    • fidder

      Public
      Detect and erase gold fiducials in cryo-EM images
      Python
      •
      Other
      •3•12•3•1•Updated Sep 6, 2024Sep 6, 2024

    • teamtomo.github.io

      Public
      teamtomo.org website
      CSS
      •1•0•0•0•Updated Aug 7, 2024Aug 7, 2024

    • teamtomo-site-archive

      Public
      A collaborative knowledge sharing platform for the cryo-ET community
      MATLAB
      •
      Other
      •13•20•0•0•Updated Aug 7, 2024Aug 7, 2024

    • libtilt

      Public
      Image processing for cryo-electron microscopy in PyTorch
      Python
      •
      Other
      •4•14•13•2•Updated Jun 17, 2024Jun 17, 2024

    • lil-aretomo

      Public
      A lightweight Python API for AreTomo
      Python
      •
      Other
      •3•7•0•0•Updated Jun 5, 2024Jun 5, 2024

    • .github

      Public
      1•0•0•0•Updated Feb 23, 2024Feb 23, 2024

    • qvox

      Public
      Quantized Voxel Array Operations
      Python
      •
      Other
      •1•2•2•2•Updated Dec 11, 2023Dec 11, 2023