pyPhase is an open-source Python package for phase retrieval from phase contrast images in the Fresnel regime. For an overview, check out the pyPhase manuscript: https://arxiv.org/abs/2012.07942

Features

• Phase retrieval algorithms

• Wave propagation.

• Handling of different image sources and formats

• Tools for pre-processing such as registration of phase contrast images and motion estimation

Version

The latest version of PyPhase is 2.0 (the one we recommend using)

• 2.0

  • works on Python 3.12

  • includes more algorithms : CTF8HOM, RAAR, HPR, NLCG, IRGN, NLPDHGM, GDTV, PDHGM_CTF et ADMM_CTF

  • no longer need to install Elastix; it is automatically integrated with a Python package (itk-elastix)

• 1.0

  • works on Python 3.7

  • requires manual installation of Elastix 4.9

Installation

Installation is currently through PyPI. Create a virtual environment using your favourite virtual environment manager, verify that pip is installed, then:

pip install pyphase

Test your installation:

python3 import pyphase

Indices and tables

• Index

• Module Index

• Search Page