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cryoJAX

Welcome to cryoJAX!
Examples
Examples
- Getting started
  Getting started
- Your first program
  Your first program
  - Write a STAR file of simulated data
API
API
- cryojax.simulator
  cryojax.simulator
  - Api
  - Representing volumes
    Representing volumes
    
    Representing poses
    
    Modeling cryo-EM volumes
  - Image formation
    Image formation
    
    Volume integration methods
    
    Contrast transfer functions
    
    Scattering approximations
  - Putting it all together
    Putting it all together
    
    Configuring an image
    
    Rendering an image
    
    Distributions: noisy images and likelihoods
- cryojax.dataset
  cryojax.dataset
  - RELION compatibility
- cryojax.io
  cryojax.io
  - Reading and writing MRC files
  - Reading atomic structures
- cryojax.ndimage
  cryojax.ndimage
  - Utility functions for image and volume arrays
  - cryojax.ndimage.operators
    cryojax.ndimage.operators
    
    Filters and masks
  - cryojax.ndimage.transforms
    cryojax.ndimage.transforms
    
    Transforms
- cryojax.coordinates
  cryojax.coordinates
  - Creating coordinate systems
  - Transforming coordinate systems
- cryojax.rotations
  cryojax.rotations
  - Representing rotations
  - Helpers for converting angular parameterizations
- cryojax.constants
  cryojax.constants
- cryojax.jax_util
  cryojax.jax_util

Filters and masks¤