Image Analysis Packages

Some of the image processing we do in cryo-EM is domain specific.

These packages for image analysis help you to explore your new ideas without reinventing the wheel. Many are implemented in PyTorch, this means they can run on GPUs and make use of autodiff for parameter optimisation.

• torch-fourier-slice

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  Fourier slice extraction/insertion

• torch-cubic-spline-grids

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  Cubic spline interpolation on regular grids

• torch-fourier-rescale

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  Fast and accurate image rescaling using Fourier methods

• torch-fourier-shift

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  Subpixel image shifting using Fourier transforms

• torch-subpixel-crop

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  Accurate subpixel cropping for image processing

• torch-image-lerp

  ---

  Sample and insert values in images and volumes

• torch-grid-utils

  ---

  Utilities for working with real-space and fourier-space grids

• torch-fourier-shell-correlation

  ---

  FSC calculation for resolution estimation

• torch-so3

  ---

  3D rotation operations and utilities

• torch-tiltxcorr

  ---

  Coarse tilt series alignment

• torch-transform-image

  ---

  Real space transformations of 2D/3D images

• torch-find-peaks

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  Find and refine peaks in 2D/3D images

• torch-affine-utils

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  Utilities for affine transforms of 2D/3D coordinates