Python Brain-mri Resources

An open software package to develop BCI based brain and cognitive computing technology for recognizing user's intention using deep learning

Brain-Tumor-Detection Building a detection model using a convolutional neural network in Tensorflow & Keras. Used brain MRI images. InceptionResNetV2

The easiest way to the neuroscience world with the shield for RaspberryPi - PIEEG (website). Open-source. Crowdsupply This project is the result of se

Image-to-image regression with uncertainty quantification in PyTorch. Take any dataset and train a model to regress images to images with rigorous, distribution-free uncertainty quantification.

PyZebrascope - an open-source Python platform for brain-wide neural activity imaging in behaving zebrafish

Recovering-Brain-Structure-Network-Using-Functional-Connectivity Framework: Papers: This repository provides a PyTorch implementation of the models ad

Detect and Classify Brain Tumor using CNN. A system performing detection and classification by using Deep Learning Algorithms using Convolution-Neural Network (CNN).

Brain Weight in Humans Variations of head sizes and brain weights in humans Kaggle dataset obtained from this link by Anubhab Swain. Image obtained fr

Organic Alkalinity Sausage Machine A Python toolbox to churn out organic alkalinity calculations with minimal brain engagement. Getting started To mak

This repository contains the code for TABS, a 3D CNN-Transformer hybrid automated brain tissue segmentation algorithm using T1w structural MRI scans. TABS relies on a Res-Unet backbone, with a Vision Transformer embedded between the encoder and decoder layers.

Deep Learning on SDF for Classifying Brain Biomarkers To reproduce the results f

Pyramid Transformer Net (PTNet) Project | Paper Pytorch implementation of PTNet for high-resolution and longitudinal infant MRI synthesis. PTNet: A Hi

Official TensorFlow implementation of the unsupervised reconstruction model using zero-Shot Learned Adversarial TransformERs (SLATER). (https://arxiv.

T2Net Task Transformer Network for Joint MRI Reconstruction and Super-Resolution (MICCAI 2021) [Paper][Code] Dependencies numpy==1.18.5 scikit_image==

Brain-Tumor-Detection A convolutional neural network model built with Tensorflow & Keras to detect brain tumor and its different variants. Data of the

Brain-Tumor-Classification-with-MRI VGG16 model-based classification project about brain tumor detection. First, you can check what people are doing o

SwinMR This is the official implementation of our proposed SwinMR: Swin Transformer for Fast MRI Please cite: @article{huang2022swin, title={Swi

BRATS 2021 Solution For Segmentation Task This repo contains the supported pytorch code and configuration files to reproduce 3D medical image segmenta

Quantifying Hippocampus Volume for Alzheimer's Progression Background Alzheimer's disease (AD) is a progressive neurodegenerative disorder that result

Transfer Learning for MRI Images Classification This repository introduces a short project made during my stay at Neuromatch Summer School 2021. This

Google Brain - Ventilator Pressure Prediction https://www.kaggle.com/c/ventilator-pressure-prediction The ventilator data used in this competition was

BCI-ToolBox 1. Introduction BCI-ToolBox is deep learning pipeline for motor-imagery classification. This repo contains five models: ShallowConvNet, De

Brain-Inspired Replay A PyTorch implementation of the continual learning experiments with deep neural networks described in the following paper: Brain

BraTS(Brain Tumour Segmentation) using V-Net This project is an approach to dete

tedana: TE Dependent ANAlysis TE-dependent analysis (tedana) is a Python library for denoising multi-echo functional magnetic resonance imaging (fMRI)

Allen Institute Visual Behavior Analysis package This repository contains code for analyzing behavioral data from the Allen Brain Observatory: Visual

mrsd: a toolkit to generate MR sequence diagrams mrsd is a Python toolkit to generate MR sequence diagrams, as shown below for the basic FLASH sequenc

Winning submission to the 2021 Brain Tumor Segmentation Challenge This repo contains the codes and pretrained weights for the winning submission to th

Winning submission to the 2021 Brain Tumor Segmentation Challenge This repo contains the codes and pretrained weights for the winning submission to th

Graph WaveNet for brain network analysis This is the implementation of the Graph WaveNet model used in our manuscript: S. Wein , A. Schüller, A. M. To

Disimpy Disimpy is a Python package for generating simulated diffusion-weighted MR signals that can be useful in the development and validation of dat

DAGAN This is the official implementation code for DAGAN: Deep De-Aliasing Generative Adversarial Networks for Fast Compressed Sensing MRI Reconstruct

U-Net Brain Tumor Segmentation 🚀 ：Feb 2019 the data processing implementation in this repo is not the fastest way (code need update, contribution is

WaveGrad Implementation (PyTorch) of Google Brain's high-fidelity WaveGrad vocoder (paper). First implementation on GitHub with high-quality generatio

VT-UNet This repo contains the supported pytorch code and configuration files to reproduce 3D medical image segmentaion results of VT-UNet. Environmen

Multi-template MRI mouse brain atlas (both in vivo and ex vivo) Mouse Brain MRI atlas (both in-vivo and ex-vivo) (repository relocated from the origin

Can fMRI reveal the representation of syntactic structure in the brain? The code base for our paper on understanding syntactic representations in the

Deep Neural Mouse Brain Modeling This is the repository for the ongoing deep neural mouse modeling project, an attempt to characterize the representat

Python asymptotic Partial Directed Coherence and Directed Coherence estimation package for brain connectivity analysis. Free software: MIT license Doc

Front-end View Backend View Table of Contents Description Prerequisites Running Basic Information Measurements User Interface Feedback and usage Descr

pyRiemann pyRiemann is a python package for covariance matrices manipulation and classification through Riemannian geometry. The primary target is cla

py_neuromodulation Click this button to run the "Tutorial ML with py_neuro" notebooks: The py_neuromodulation toolbox allows for real time capable pro

JBHI-Pytorch This repository contains a reference implementation of the algorithms described in our paper "Self-supervised Multi-modal Hybrid Fusion N

deepMRI: Deep learning methods for MRI Authors: Yang Gao, Hongfu Sun This repo is devloped based on Pytorch (1.8 or later) and matlab (R2019a or later

Brain-Image-Segmentation Segmentation of brain tissues in MRI image has a number of applications in diagnosis, surgical planning, and treatment of bra

meddlr Getting Started Meddlr is a config-driven ML framework built to simplify medical image reconstruction and analysis problems. Installation To av

VoxHRNet This is the official implementation of the following paper: Whole Brain Segmentation with Full Volume Neural Network Yeshu Li, Jonathan Cui,

Evaluating deep transfer learning for whole-brain cognitive decoding This README file contains the following sections: Project description Repository

Structural Constraints on Information Content in Human Brain States Code accompanying the paper "The information content of brain states is explained

Hierarchical probabilistic 3D U-Net, with attention mechanisms (—𝘈𝘵𝘵𝘦𝘯𝘵𝘪𝘰𝘯 𝘜-𝘕𝘦𝘵, 𝘚𝘌𝘙𝘦𝘴𝘕𝘦𝘵) and a nested decoder structure with deep supervision (—𝘜𝘕𝘦𝘵++). Built in TensorFlow 2.5. Configured for voxel-level clinically significant prostate cancer detection in multi-channel 3D bpMRI scans.

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

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

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.

QSIprep: Preprocessing and analysis of q-space images Full documentation at https://qsiprep.readthedocs.io About qsiprep configures pipelines for proc

Documentation The documentation is available on populse_mia's website here Installation From PyPI, for users By cloning the package, for developers Fr

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

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

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

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

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

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

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"

fastMRI is a collaborative research project from Facebook AI Research (FAIR) and NYU Langone Health to investigate the use of AI to make MRI scans faster. NYU Langone Health has released fully anonymized knee and brain MRI datasets that can be downloaded from the fastMRI dataset page. Publications associated with the fastMRI project can be found at the end of this README.

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

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