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• segmentation

This repository includes the official project of TransUNet, presented in our paper: TransUNet: Transformers Make Strong Encoders for Medical Image Segmentation.

Tool for robust segmentation of >100 important anatomical structures in CT and MR images

Semi Supervised Learning for Medical Image Segmentation, a collection of literature reviews and code implementations.

• semi-supervised-learning

[IEEE TMI Best Paper Award] Official Implementation for UNet++

• medical-imaging
• segmentation
• unet
• biomedical-imaging

Medical imaging processing for AI applications.

• pytorch
• medical-image-computing
• deep-learning
• data-augmentation

Pytorch 3D U-Net Convolution Neural Network (CNN) designed for medical image segmentation

Use of Attention Gates in a Convolutional Neural Network / Medical Image Classification and Segmentation

• convolutional-neural-networks
• attention-model
• image-classification
• image-segmentation

:spider_web: Gmsh for Python

• python
• pypi
• mesh-generation
• engineering

3D medical imaging reconstruction software

• dicom
• dicom-viewer
• magnetic-resonance-imaging
• medical-image-processing

Simultaneous Nuclear Instance Segmentation and Classification in H&E Histology Images.

U-Net Brain Tumor Segmentation

• tensorflow
• tensorlayer
• unet
• medical-imaging

A Python native dynamical system simulation framework in the block diagram paradigm.

• blockdiagram
• control-systems
• hierarchical-modeling
• nonlinear-dynamics

Medical LLM agent and MRI segmentation workspace built on PharmaLLM, with LangGraph, vLLM, and BEU-Net.

An automatic code generator for nonlinear model predictive control (NMPC) and the continuation/GMRES method (C/GMRES) based numerical solvers for NMPC

• model-predictive-control
• nonlinear-model-predictive-control
• mpc
• nmpc

A tool for cell instance aware segmentation in densely packed 3D volumetric images

• segmentation
• deep-learning
• bioinformatics
• neural-network

ENIGMA HALFpipe is a user-friendly software that facilitates reproducible analysis of fMRI data

• neuroimaging
• reproducibility
• pipeline
• meta-analysis

Axon/Myelin segmentation using Deep Learning

• deep-learning
• machine-learning
• myelin
• axon

CASSIA: A Multi-Agent LLM-Based Single-Cell Cell Type Annotation Framework

• ai4science
• llm
• multiagent-systems
• prompt-engineering

:dart: Accurate sums and dot products for Python.

• mathematics
• numerical-methods
• engineering
• accuracy

Toolbox for the analysis of smFISH images.

• pattern-classification
• rna-localization
• segmentation
• smfish

PyTorch implementation of "TGSA: Protein-Protein Association-Based Twin Graph Neural Networks for Drug Response Prediction with Similarity Augmentation"

Accurate segmentation of bacterial microscope images using deep learning synthetically generated image data.

• microscopy
• image-processing
• segmentation
• biology