MIC-DKFZ/LIDC-IDRI-processing MIC-DKFZ/LIDC-IDRI-processing

  • Stars
    star
    75
  • Rank 424,578 (Top 9 %)
  • Language
    Python
  • License
    MIT License
  • Created about 6 years ago
  • Updated about 5 years ago
Twitter logo Share LinkedIn logo Share Facebook logo Share
MIC-DKFZ/LIDC-IDRI-processing
github

MIC-DKFZ

Reviews

There are no reviews yet. Be the first to send feedback to the community and the maintainers!

Repository Details

Scripts for the preprocessing of LIDC-IDRI data

More Repositories

1

nnUNet

Python
5,539
star
2

medicaldetectiontoolkit

The Medical Detection Toolkit contains 2D + 3D implementations of prevalent object detectors such as Mask R-CNN, Retina Net, Retina U-Net, as well as a training and inference framework focused on dealing with medical images.
Python
1,287
star
3

batchgenerators

A framework for data augmentation for 2D and 3D image classification and segmentation
Jupyter Notebook
1,077
star
4

nnDetection

nnDetection is a self-configuring framework for 3D (volumetric) medical object detection which can be applied to new data sets without manual intervention. It includes guides for 12 data sets that were used to develop and evaluate the performance of the proposed method.
Python
536
star
5

MedNeXt

[MICCAI 2023] MedNeXt is a fully ConvNeXt architecture for 3D medical image segmentation.
Python
313
star
6

HD-BET

MRI brain extraction tool
Python
262
star
7

TractSeg

Automatic White Matter Bundle Segmentation
Python
222
star
8

napari-sam

Python
220
star
9

trixi

Manage your machine learning experiments with trixi - modular, reproducible, high fashion. An experiment infrastructure optimized for PyTorch, but flexible enough to work for your framework and your tastes.
Python
219
star
10

basic_unet_example

An example project of how to use a U-Net for segmentation on medical images with PyTorch.
Python
137
star
11

MITK-Diffusion

MITK Diffusion - Official part of the Medical Imaging Interaction Toolkit
C++
76
star
12

BraTS2017

Python
74
star
13

BodyPartRegression

Python
62
star
14

dynamic-network-architectures

Python
61
star
15

mood

Repository for the Medical Out-of-Distribution Analysis Challenge.
Python
60
star
16

ACDC2017

Python
54
star
17

niicat

This is a tool to quickly preview nifti images on the terminal
Python
51
star
18

RegRCNN

This repository holds the code framework used in the paper Reg R-CNN: Lesion Detection and Grading under Noisy Labels. It is a fork of MIC-DKFZ/medicaldetectiontoolkit with regression capabilites.
Python
51
star
19

Skeleton-Recall

Skeleton Recall Loss for Connectivity Conserving and Resource Efficient Segmentation of Thin Tubular Structures
Python
47
star
20

MultiTalent

Implemention of the Paper "MultiTalent: A Multi-Dataset Approach to Medical Image Segmentation"
Python
46
star
21

image_classification

🎯 Deep Learning Framework for Image Classification & Regression in Pytorch for Fast Experiments
Python
42
star
22

RTTB

Swiss army knife for radiotherapy analysis
C++
26
star
23

vae-anomaly-experiments

Python
26
star
24

Hyppopy

Hyppopy is a python toolbox for blackbox optimization. It's purpose is to offer a unified and easy to use interface to a collection of solver libraries.
Python
25
star
25

patchly

A grid sampler for larger-than-memory N-dimensional images
Python
23
star
26

semantic_segmentation

Python
23
star
27

probabilistic_unet

A U-Net combined with a variational auto-encoder that is able to learn conditional distributions over semantic segmentations.
Jupyter Notebook
22
star
28

image-time-series

Code for deep learning-based glioma/tumor growth models
Python
21
star
29

anatomy_informed_DA

Python
18
star
30

batchgeneratorsv2

Python
13
star
31

foundation-models-for-cbmir

Python
12
star
32

MedVol

Python
12
star
33

ParticleSeg3D

Python
10
star
34

generalized_yolov5

An extension of YOLOv5 to non-natural images together with 5-Fold Cross-Validation
Python
8
star
35

radtract

RadTract: enhanced tractometry with radiomics-based imaging biomarkers for improved predictive modelling.
Python
8
star
36

gpconvcnp

Code for "GP-ConvCNP: Better Generalization for Convolutional Conditional Neural Processes on Time Series Data"
Python
8
star
37

cmdint

CmdInterface enables detailed logging of command line and python experiments in a very lightweight manner (coding wise). It wraps your command line or python function calls in a few lines of python code and logs everything you might need to reproduce the experiment later on or to simply check what you did a couple of years ago.
Python
8
star
38

acvl_utils

Python
7
star
39

MurineAirwaySegmentation

Python
7
star
40

cOOpD

Python
7
star
41

PROUNET

Prostate U-net
Python
7
star
42

napari-nifti

Python
4
star
43

agent-sam

Segment Anything model wrapper used by the Medical Imaging Interaction Toolkit (MITK).
Python
4
star
44

OverthINKingSegmenter

Python
3
star
45

perovskite-xai

Python
3
star
46

help_a_hematologist_out_challenge

Python
2
star
47

AGGC2022

Automated Gleason Grading on WSI
Python
2
star
48

tqdmp

Multiprocessing with tqdm progressbars!
Python
2
star
49

MatchPoint

MatchPoint is a translational image registration framework written in C++. It offers a standardized interface to utilize several registration algorithm resources (like ITK, plastimatch, elastix) easily in a host application.
C++
2
star
50

napari-mzarr

Python
2
star
51

n2c2-challenge-2019

Jupyter Notebook
2
star
52

mzarr

Python
1
star
53

imlh-icml-detection-tools

Python
1
star
54

napari-blosc2

Python
1
star
55

BraTPRO

Python
1
star