kimalaacer

kimalaacer's Stars

• ucsd-ccbb/NetColoc

  development of network co-localization tool

  Language:Jupyter Notebook136

• krishnanlab/PyGenePlexus

  A network based gene classification library to generate genome wide predictions about genes that are functionally similar to the input gene list.

  Language:Python203

• mmilano87/PCAPxDEG

  A Python Clustering Analysis Protocol Of Genes Expression Data Sets

  Language:Python41

• sbi-rostock/AIR

  The Atlas of Inflammation Resolution

  Language:JavaScript43

• ShahiraAbousamra/til_classification

  Language:Python135

• nadeemlab/DeepLIIF

  Deep Learning Inferred Multiplex ImmunoFluorescence for IHC Image Quantification (https://deepliif.org) [Nature Machine Intelligence'22, CVPR'22, MICCAI'23, Histopathology'23, MICCAI'24]

  Language:Python16661

• LeeJunHyun/Image_Segmentation

  Pytorch implementation of U-Net, R2U-Net, Attention U-Net, and Attention R2U-Net.

  Language:Python2.7k596

• PaddlePaddle/PaddleSeg

  Easy-to-use image segmentation library with awesome pre-trained model zoo, supporting wide-range of practical tasks in Semantic Segmentation, Interactive Segmentation, Panoptic Segmentation, Image Matting, 3D Segmentation, etc.

  Language:Python8.6k1.7k

• qubvel-org/segmentation_models.pytorch

  Semantic segmentation models with 500+ pretrained convolutional and transformer-based backbones.

  Language:Python9.5k1.7k

• srinidhiPY/PaddleSeg

  Easy-to-use image segmentation library with awesome pre-trained model zoo, supporting wide-range of practical tasks in Semantic Segmentation, Interactive Segmentation, Panoptic Segmentation, Image Matting, 3D Segmentation, etc.

  1

• HenriquesLab/ZeroCostDL4Mic

  ZeroCostDL4Mic: A Google Colab based no-cost toolbox to explore Deep-Learning in Microscopy

  Language:Jupyter Notebook555129

• TissueImageAnalytics/tiatoolbox

  Computational Pathology Toolbox developed by TIA Centre, University of Warwick.

  Language:Python37477

• TissueImageAnalytics/cerberus

  One Model is All You Need: Multi-Task Learning Enables Simultaneous Histology Image Segmentation and Classification

  Language:Python6812

• PathologyDataScience/HistomicsML2

  A tool for training machine-learning models with whole-slide imaging datasets

  Language:JavaScript225

• AICAN-Research/FAST-Pathology

  ⚡ Open-source software for deep learning-based digital pathology

  Language:C++12124

• andreped/NoCodeSeg

  🔬 Code-free deep segmentation for computational pathology

  Language:Jupyter Notebook5016

• Dana-Farber-AIOS/pathml

  Tools for computational pathology

  Language:Python38884

• BZdrazil/Steatosis_prediction

  Repository for storing code and workflows associated to the paper "Combining in vivo data with in silico predictions for modeling hepatic steatosis by using stratified bagging and conformal prediction" written by S. Jain, U. Norinder, S.E. Escher, and B. Zdrazil

  Language:Python31

• SamsungLabs/NAFLD

  Two-dimensional convolutional neural network using quantitative US for non-invasive assessment of hepatic steatosis in NAFLD

  Language:Python5

• foxtrotmike/python-wsi-preprocessing

  Python Whole Slide Image Preprocessing

  Language:Python1

• foxtrotmike/CLAM

  Data Efficient & Weakly Supervised Computational Pathology on Whole Slide Images

  1

• navidstuv/NuClick

  Interactive Segmentation of Nucleus

  Language:Python6016

• choosehappy/QuickAnnotator

  An open-source digital pathology based rapid image annotation tool

  Language:JavaScript7427

• FabianHeinemann/Deep_learning_for_liver_NAS_and_fibrosis_scoring

  Repository for the publication "Deep learning enables pathologist-like scoring of NASH models"

  Language:Jupyter Notebook136

• smujiang/Re-stained_WSIs_Registration

  Re-stained whole slide image alignment

  Language:Python309

• maragraziani/interpretAI_DigiPath

  Hands-on Sessions 1 and 2 at the Building Interpretable AI for Digital Pathology AMLD workshop 2021

  Language:Jupyter Notebook2113

• choosehappy/QuPathGeoJSONImportExport

  Coincides with blogpost for using geojson and shapely

  Language:Python287

• google/automl

  Google Brain AutoML

  Language:Jupyter Notebook6.2k1.4k

• rwightman/efficientdet-pytorch

  A PyTorch impl of EfficientDet faithful to the original Google impl w/ ported weights

  Language:Python1.6k293

• huggingface/pytorch-image-models

  The largest collection of PyTorch image encoders / backbones. Including train, eval, inference, export scripts, and pretrained weights -- ResNet, ResNeXT, EfficientNet, NFNet, Vision Transformer (ViT), MobileNetV4, MobileNet-V3 & V2, RegNet, DPN, CSPNet, Swin Transformer, MaxViT, CoAtNet, ConvNeXt, and more

  Language:Python31.7k4.7k