Pinned Repositories
BaSiC
A BaSiC Tool for Background and Shading Correction of Optical Microscopy Images
CAR_T_TargetIdentification
Computational identification of targets for CAR-T cell therapy in AML
DISPR
A Diffusion Model Predicts 3D Shapes from 2D Microscopy Images
DomainLab
modular domain generalization: https://pypi.org/project/domainlab/
HematoFatePrediction
Code accompanying "Prospective identification of hematopoietic lineage choice by deep learning", Nature methods 2017, DOI:10.1038/nmeth.4182
HistoGPT
Generating highly accurate pathology reports from gigapixel whole slide images with HistoGPT
InstantDL
InstantDL: An easy and convenient deep learning pipeline for image segmentation and classification
Med-AL-SSL
Repository for implementation of active learning and semi-supervised learning algorithms and applying them to medical imaging datasets
SHAPR
SHAPR - An AI approach to predict 3D cell shapes from 2D microscopic images
SHAPR_torch
SHAPR: Code for "Capturing Shape Information with Multi-Scale Topological Loss Terms for 3D Reconstruction"
Marr Lab's Repositories
marrlab/DomainLab
modular domain generalization: https://pypi.org/project/domainlab/
marrlab/InstantDL
InstantDL: An easy and convenient deep learning pipeline for image segmentation and classification
marrlab/SHAPR_torch
SHAPR: Code for "Capturing Shape Information with Multi-Scale Topological Loss Terms for 3D Reconstruction"
marrlab/DISPR
A Diffusion Model Predicts 3D Shapes from 2D Microscopy Images
marrlab/HematoFatePrediction
Code accompanying "Prospective identification of hematopoietic lineage choice by deep learning", Nature methods 2017, DOI:10.1038/nmeth.4182
marrlab/DinoBloom
Blood Cell Foundation Model based on DINOv2
marrlab/HistoGPT
Generating highly accurate pathology reports from gigapixel whole slide images with HistoGPT
marrlab/CAR_T_TargetIdentification
Computational identification of targets for CAR-T cell therapy in AML
marrlab/SHAPR
SHAPR - An AI approach to predict 3D cell shapes from 2D microscopic images
marrlab/scifAI
scifAI: An explainable AI python framework for the analysis of multi-channel imaging data
marrlab/Anomaly-aware-MIL
A simple pooling method for multiple instance learning based on attention and anomaly scores of instances.
marrlab/SCEMILA
Single cell based explainable multiple instance learning algorithm (SCEMILA) for genetic acute myeloid leukemia subtype classification.
marrlab/AE-CFE
marrlab/attMIL
Attention Based Multiple Instance Learning (attMIL)
marrlab/BatchDetect
BatchDetect: a python package for detect systematic batch effects in datasets
marrlab/RedTell
marrlab/Bright2Nuc
Preprint: https://www.biorxiv.org/content/10.1101/2022.08.30.505835v1.full.pdf
marrlab/Gal1repression
Modeling Gal1 repression kinetics in single budding yeast cells
marrlab/percollFFT
marrlab/initial-data-point-selection
marrlab/Recap-Friday
In this repository we maintain the material for recap fridays at marr lab
marrlab/AE-CFE-1
marrlab/dermAI_code
Code needed to preprocess and analyse data for the dermAI project
marrlab/HematopoieticDisorderAnalysis
Data visualization, model implementation, parameter inference and model selection for mechanistic models of hematopoiesis
marrlab/marrlab-blog
marrlab/MILPLE
marrlab/MLL23
A large publicly available single-cell peripheral blood dataset for domain generalized hematological disease diagnostics
marrlab/patch-visualization
marrlab/pxpermute
marrlab/scifAI-notebooks
scifAI-notebooks: notebooks, analysis and tutorials using the scifAI python packages