jcrudy

connected-components-3d

Connected components on discrete and continuous multilabel 3D & 2D images. Handles 26, 18, and 6 connected variants; periodic boundaries (4, 8, & 6)

MultiPlanarUNet

Multi-Planar UNet for autonomous segmentation of 3D medical images

fast-entry_points

make entry_points specified in setup.py load more quickly.

libvips

A fast image processing library with low memory needs.

boundary-loss

Official code for "Boundary loss for highly unbalanced segmentation", runner-up for best paper award at MIDL 2019. Extended version in MedIA, volume 67, January 2021.

UNetPlusPlus

[IEEE TMI] Official Implementation for UNet++

Unet_3D

3D Unet Equipped with Advanced Deep Learning Methods

unet

Keras implementation of a 2D/3D U-Net with Additive Attention, Inception, and Recurrence functions provided

yogadl

yogadl, the flexible data layer

elasticdeform

Differentiable elastic deformations for N-dimensional images (Python, SciPy, NumPy, TensorFlow, PyTorch).

static-frame

Immutable and statically-typeable DataFrames with runtime type and data validation

python-irtk

Cython based wrapper for IRTK

xnat-reboot

Refreshed version of XNAT without legacy front-end code.

xnat-docker-compose

Build an XNAT server configuration with Docker Compose

data-science-types

Mypy stubs, i.e., type information, for numpy, pandas and matplotlib

pytorch-unsupervised-segmentation-tip

gitflow

HubFlow: A Git extension to make it easy to use GitFlow with GitHub. Based on the original gitflow extension for git.

cibuildwheel

🎡 Build Python wheels for all the platforms with minimal configuration.

python-snippets

gitflow

Git extensions to provide high-level repository operations for Vincent Driessen's branching model.

jupytext

Jupyter Notebooks as Markdown Documents, Julia, Python or R scripts

DeepSpeed

DeepSpeed is a deep learning optimization library that makes distributed training and inference easy, efficient, and effective.

ion

Ion

dicognito

A library and command line tool for anonymizing DICOM files

batchgenerators

A framework for data augmentation for 2D and 3D image classification and segmentation

deepdiff

DeepDiff: Deep Difference and search of any Python object/data. DeepHash: Hash of any object based on its contents. Delta: Use deltas to reconstruct objects by adding deltas together.

DeepBrainSeg

Fully automatic brain tumour segmentation using Deep 3-D convolutional neural networks

TomograPy

Siddon tomography algorithm

phantominator

Generate numerical phantoms.

noise

Perlin noise library for Python