Python Brain-imaging Resources

MultiMix This repository contains the implementation of MultiMix. Our publications for this project are listed below: "MultiMix: Sparingly Supervised,

Reconstruct handwritten characters from brains using GANs Example code for the paper "Generative adversarial networks for reconstructing natural image

OSS-Net: Memory Efficient High Resolution Semantic Segmentation of 3D Medical Data Christoph Reich, Tim Prangemeier, Özdemir Cetin & Heinz Koeppl | Pr

OSS-Net: Memory Efficient High Resolution Semantic Segmentation of 3D Medical Data Christoph Reich, Tim Prangemeier, Özdemir Cetin & Heinz Koeppl | Pr

Blue Brain Search Source Code DOI Data & Models DOI Documentation Latest Release Python Versions License Build Status Static Typing Code Style Securit

starfish: scalable pipelines for image-based transcriptomics starfish is a Python library for processing images of image-based spatial transcriptomics

DBSegment This tool generates 30 deep brain structures segmentation, as well as a brain mask from T1-Weighted MRI. The whole procedure should take ~1

ToFFi Toolbox This repository contains "before peer review" version of the software related to the preprint of the publication ToFFi - Toolbox for Fre

A Brain Tumor Detection and Classification Model built using RESNET50 architecture. The model is also deployed as a web application using Flask framework.

img2texture Command line utility for converting images to seamless tiles. The resulting tiles can be used as textures in games, compositing and 3D mod

MONAI Deploy App SDK offers a framework and associated tools to design, develop and verify AI-driven applications in the healthcare imaging domain.

Unofficial PyTorch implementation of SimCLR by Google Brain

Code for Simulations in the Publication Can the brain use waves to solve planning problems? Installing Required Python Packages Please use Python vers

Useful materials and tutorials for 110-1 NTU DBME5028 (Application of Deep Learning in Medical Imaging)

A 3D multi-modal medical image segmentation library in PyTorch We strongly believe in open and reproducible deep learning research. Our goal is to imp

Small Lesion Segmentation in Brain MRIs with Subpixel Embedding PyTorch implementation of Small Lesion Segmentation in Brain MRIs with Subpixel Embedd

AlignShift NEW: Code for our new MICCAI'21 paper "Asymmetric 3D Context Fusion for Universal Lesion Detection" will also be pushed to this repository

Brain Tokyo Workshop 🧠 🗼 This repo contains research materials released by members of the Google Brain team in Tokyo. Past Projects Weight Agnostic

Scientific Computational Imaging COde (SCICO) SCICO is a Python package for solving the inverse problems that arise in scientific imaging applications

Dense Deep Unfolding Network with 3D-CNN Prior for Snapshot Compressive Imaging, ICCV2021 [PyTorch Code]

Pillow Python Imaging Library (Fork) Pillow is the friendly PIL fork by Alex Clark and Contributors. PIL is the Python Imaging Library by Fredrik Lund

bartpy Python bindings for BART. Overview This repo contains code to generate an updated Python wrapper for the Berkeley Advance Reconstruction Toolbo

Mask-RCNN on Mycobacterium tuberculosis This is an example of object detection on Mycobacterium Tuberculosis using Mask RCNN. Implement of Mask R-CNN

Mask-RCNN on Mycobacterium tuberculosis This is an example of object detection on Mycobacterium Tuberculosis using Mask RCNN. Implement of Mask R-CNN

WobblyStitcher Introduction A scalable implementation of WobblyStitcher Dependencies $ python -m pip install numpy scikit-image Visualization ImageJ

Medical image preprocessing and augmentation toolkit for deep learning. Part of the PyTorch Ecosystem.

ml4h is a toolkit for machine learning on clinical data of all kinds including genetics, labs, imaging, clinical notes, and more

Deep Optics for Single-shot High-dynamic-range Imaging Code associated with the paper "Deep Optics for Single-shot High-dynamic-range Imaging" CVPR, 2

Efficient Neural Architecture Search (ENAS) in PyTorch PyTorch implementation of Efficient Neural Architecture Search via Parameters Sharing. ENAS red

NCRF Prerequisites Data Whole slide images Annotations Patch images Model Training Testing Tissue mask Probability map Tumor localization FROC evaluat

U-Net for brain segmentation U-Net implementation in PyTorch for FLAIR abnormality segmentation in brain MRI based on a deep learning segmentation alg

Deep Neural Networks Improve Radiologists' Performance in Breast Cancer Screening Introduction This is an implementation of the model used for breast

UNet for segmenting salt deposits from seismic images with PyTorch. General We, tugstugi and xuyuan, have participated in the Kaggle competition TGS S

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.

What is nnDetection? Simultaneous localisation and categorization of objects in medical images, also referred to as medical object detection, is of hi

Brain Augmented Reality (AR) A neuroanatomy-based augmented reality experience powered by computer vision that features 3D visuals of the Atlas Brain

WaveGrad2 - PyTorch Implementation PyTorch Implementation of Google Brain's WaveGrad 2: Iterative Refinement for Text-to-Speech Synthesis. Status (202

High-Performance Brain-to-Text Communication via Handwriting Overview This repo is associated with this manuscript, preprint and dataset. The code can

Code from the paper "High-Performance Brain-to-Text Communication via Handwriting"

Welcome to MedicalTorch MedicalTorch is an open-source framework for PyTorch, implementing an extensive set of loaders, pre-processors and datasets fo

CheXbert: Combining Automatic Labelers and Expert Annotations for Accurate Radiology Report Labeling Using BERT CheXbert is an accurate, automated dee

Domain Generalization for Medical Imaging Classification with Linear Dependency Regularization The code release of paper 'Domain Generalization for Me

TransBTS: Multimodal Brain Tumor Segmentation Using Transformer This repo is the official implementation for TransBTS: Multimodal Brain Tumor Segmenta

InVesalius InVesalius generates 3D medical imaging reconstructions based on a sequence of 2D DICOM files acquired with CT or MRI equipments. InVesaliu

Medical-Transformer Pytorch Code for the paper "Medical Transformer: Gated Axial-Attention for Medical Image Segmentation" About this repo: This repo

Meshroom is a free, open-source 3D Reconstruction Software based on the AliceVision Photogrammetric Computer Vision framework. Learn more details abou

Documentation: https://raamana.github.io/neuropredict/ News As of v0.6, neuropredict now supports regression applications i.e. predicting continuous t

nilearn Nilearn enables approachable and versatile analyses of brain volumes. It provides statistical and machine-learning tools, with instructive doc

Pillow Python Imaging Library (Fork) Pillow is the friendly PIL fork by Alex Clark and Contributors. PIL is the Python Imaging Library by Fredrik Lund