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BaSiC
A BaSiC Tool for Background and Shading Correction of Optical Microscopy ImagesDomainLab
modular domain generalization: https://pypi.org/project/domainlab/InstantDL
InstantDL: An easy and convenient deep learning pipeline for image segmentation and classificationSHAPR_torch
SHAPR: Code for "Capturing Shape Information with Multi-Scale Topological Loss Terms for 3D Reconstruction"DISPR
A Diffusion Model Predicts 3D Shapes from 2D Microscopy ImagesDinoBloom
Blood Cell Foundation Model based on DINOv2HistoGPT
A vision language model for gigapixel whole slide images in histopathologyHematoFatePrediction
Code accompanying "Prospective identification of hematopoietic lineage choice by deep learning", Nature methods 2017, DOI:10.1038/nmeth.4182Med-AL-SSL
Repository for implementation of active learning and semi-supervised learning algorithms and applying them to medical imaging datasetsSHAPR
SHAPR - An AI approach to predict 3D cell shapes from 2D microscopic imagesCAR_T_TargetIdentification
Computational identification of targets for CAR-T cell therapy in AMLscifAI
scifAI: An explainable AI python framework for the analysis of multi-channel imaging dataAnomaly-aware-MIL
A simple pooling method for multiple instance learning based on attention and anomaly scores of instances.ClassificationALL
Accurate classification of blood cells in a small acute lymphoblastic leukemia dataset using convolutional neural networkscausalspyne
Python data generation tool with unobserved confounding as testbed for causal discovery and causal abstractionAE-CFE
attMIL
Attention Based Multiple Instance Learning (attMIL)RedTell
BatchDetect
BatchDetect: a python package for detect systematic batch effects in datasetsWBC-NCA
percollFFT
Gal1repression
Modeling Gal1 repression kinetics in single budding yeast cellsHematopoiesisModelComparison
comparison of different lineage hierarchy models describing hematopoiesisBright2Nuc
Preprint: https://www.biorxiv.org/content/10.1101/2022.08.30.505835v1.full.pdfNeurogenesisAnalysis
Pre-anaylsis, neurogenesis model implementation, parameter inference procedure, model averaging, model evaluation and predictionLove Open Source and this site? Check out how you can help us