mbipy 0.1.0

Modulation-based x-ray phase contrast imaging.

mbipy

Modulation based x-ray phase contrast imaging.

Installation

Clone the repository and cd to the directory, then:

pip install .

Usage

See the example notebooks.

Algorithms

Normal Integration

Functional Interface

function	CuPy	JAX	Numba	NumPy	PyTorch
arnison	🟢	🟢	🟢	🟢	🟢
dct_poisson	🟢	🟢	🟢	🟢	🟢
dst_poisson	🟢	🟢	🟢	🟢	🟢
frankot	🟢	🟢	🟢	🟢	🟢
kottler	🟢	🟢	🟢	🟢	🟢
li	🟢	🔴	🔴	🟢	🔴
southwell	❓	🔴	🔴	🟢	🔴

OOP Interface

class	CuPy	JAX	Numba	NumPy	PyTorch
Li	🟢	🔴	🔴	🟢	🔴
Southwell	❓	🔴	🔴	🟢	🔴

Phase Retrieval

Implicit

Functional Interface

function	CuPy	JAX	Numba	NumPy	PyTorch
lcs	❓	🟢	❓	🟢	🟢
lcs_df	❓	🟢	❓	🟢	🟢
lcs_ddf	❓	🟢	❓	🟢	🟢

OOP Interface

class	CuPy	JAX	Numba	NumPy	PyTorch
Lcs	❓	❓	❓	🟢	🟢
LcsDf	❓	❓	❓	🟢	🟢
LcsDDf	❓	❓	❓	🟢	🟢

Explicit

Functional Interface

function	CuPy	JAX	Numba	NumPy	PyTorch
umpa	❓	❓ ¹	❓	🟢	❓
xst	❓	❓ ¹	❓	🟢	❓
xsvt	❓	❓ ¹	❓	🟢	❓
xst_xsvt	❓	❓ ¹	❓	🟢	❓

OOP Interface

function	CuPy	JAX	Numba	NumPy	PyTorch
Umpa	❓	❓ ¹	❓	🟢	❓
Xst	❓	❓ ¹	❓	🟢	❓
Xsvt	❓	❓ ¹	❓	🟢	❓
XstXsvt	❓	❓ ¹	❓	🟢	❓

¹ Has significant memory usage during compilation due to lack of strides in JAX.

² No wavelet transform available in numba - contributions welcome!

Data

To download the data for the examples, you need to use git-lfs.

Dependencies

• array-api-compat
• numpy

Optional:

• scipy
• pywavelets
• cupy
  • pyvkfft
• numba
  • rocket-fft
• jax
  • jaxwt
• torch
  • torch-dct
  • ptwt