Owkin

All

48 repositories

PyDESeq2
Public
A Python implementation of the DESeq2 pipeline for bulk RNA-seq DEA.
python bioinformatics rna-seq transcriptomics differential-expression
Python
•
MIT License
•68•604•33•5•Updated Dec 17, 2024Dec 17, 2024
docker-dependency-updater
Public
Checks system dependencies and update them if required
environment--production bu--dept-data-platform owner--squad-dse
TypeScript
•
Apache License 2.0
•0•1•0•5•Updated Dec 16, 2024Dec 16, 2024
cytocommunity_ofta
Public
A spatial omics data analysis tool that enables both unsupervised and supervised discovery of complex tissue cellular neighborhoods from cell phenotypes.
Jupyter Notebook
•
MIT License
•12•0•0•0•Updated Dec 13, 2024Dec 13, 2024
stLearn
Public
A novel machine learning pipeline to analyse spatial transcriptomics data
Python
•
Other
•27•0•0•0•Updated Dec 12, 2024Dec 12, 2024
fedpydeseq2-paper-experiments
Public
Python
•
MIT License
•0•0•0•0•Updated Dec 10, 2024Dec 10, 2024
fedpydeseq2
Public
A federated implementation of PyDESeq2, based on Substra.
python bioinformatics rna-seq transcriptomics differential-expression federated-learning
Python
•
MIT License
•0•6•0•0•Updated Dec 10, 2024Dec 10, 2024
fedpydeseq2-datasets
Public
Python
•
MIT License
•0•0•0•0•Updated Dec 10, 2024Dec 10, 2024
HE2TEAD
Public
Python
•
Other
•0•0•0•0•Updated Nov 26, 2024Nov 26, 2024
fedeca
Public
Code repository associated with the FedECA article
survival-analysis causal-inference federated-learning
Python
•
Other
•2•7•8•0•Updated Nov 19, 2024Nov 19, 2024
geosketch
Public
Geometry-preserving random sampling
Python
•
MIT License
•11•0•0•0•Updated Oct 29, 2024Oct 29, 2024
deepdeconv-fork
Public
Deep probabilistic analysis of single-cell omics data
Python
•
BSD 3-Clause "New" or "Revised" License
•365•1•0•3•Updated Oct 10, 2024Oct 10, 2024
drl-evaluation
Public
Robust evaluation of DRL methods for survival and gene essentiality prediction on bulk RNAseq
Python
•
MIT License
•2•3•1•0•Updated Sep 28, 2024Sep 28, 2024
philips-isyntax-rs
Public
Rust bindings for Philips Pathology SDK
bu--dept-diagnostics-tools environment--production owner--hichamazimani
Rust
•
Apache License 2.0
•4•0•0•0•Updated Sep 12, 2024Sep 12, 2024
GrAIdient
Public
GrAIdient is a deep learning framework that aims at challenging the way we train and run models.
bu--dept-diagnostics-tools environment--development owner--jeanfrancoisreboud
Swift
•
MIT License
•2•85•0•0•Updated Sep 3, 2024Sep 3, 2024
OAH-Clone-Test
Public
Test Clone Logs
environment--development bu--dept-data-platform owner--oalhajjar
0•0•0•0•Updated Aug 19, 2024Aug 19, 2024
deepdeconv
Public
Deep probabilistic analysis of single-cell omics data
Python
•
BSD 3-Clause "New" or "Revised" License
•365•0•0•0•Updated Aug 13, 2024Aug 13, 2024
openslide-rs
Public
Rust bindings for Openslide
bu--dept-diagnostics-tools environment--production owner--hichamazimani
Rust
•
Apache License 2.0
•4•0•0•0•Updated Jul 18, 2024Jul 18, 2024
hte
Public
Python
•
Apache License 2.0
•1•3•0•0•Updated Jun 27, 2024Jun 27, 2024
FLamby
Public
Cross-silo Federated Learning playground in Python. Discover 7 real-world federated datasets to test your new FL strategies and try to beat the leaderboard.
python healthcare differential-privacy federated-learning machine-learning deep-learning dataset
Python
•
MIT License
•25•206•24•0•Updated Jun 19, 2024Jun 19, 2024
benchmark_flamby
Public
This is an example to showcase how one can use benchopt in combination with FLamby in order to be able to create and share reproducible reports about performance of new FL strategies.
python machine-learning deep-learning healthcare dataset differential-privacy federated-learning
Python
•
MIT License
•1•4•1•0•Updated Jun 12, 2024Jun 12, 2024
owkin-sam
Public
The repository provides code for running inference with the SegmentAnything Model (SAM), links for downloading the trained model checkpoints, and example notebooks that show how to use the model.
Jupyter Notebook
•
Apache License 2.0
•5.7k•0•0•0•Updated Apr 17, 2024Apr 17, 2024
HistoSSLscaling
Public
Code associated to the publication: Scaling self-supervised learning for histopathology with masked image modeling, A. Filiot et al., MedRxiv (2023). We publicly release Phikon 🚀
computational-pathology
Jupyter Notebook
•
Other
•11•148•3•0•Updated Jan 29, 2024Jan 29, 2024
diag-back-itw
Public
Rust
•0•0•0•0•Updated Dec 4, 2023Dec 4, 2023
mmdetection_histomics
Public
Fork of OpenMMLab Detection Toolbox and Benchmark
Python
•
Apache License 2.0
•9.5k•0•0•0•Updated Sep 26, 2023Sep 26, 2023
EUCAIM_Substra_demo
Public archive
Substra demo for EUCAIM project
bu--ptlm environment--development owner--thibaultfy
Python
•0•2•0•0•Updated Aug 30, 2023Aug 30, 2023
python-github-backup
Public
backup a github user or organization
Python
•
MIT License
•238•0•0•0•Updated Jun 21, 2023Jun 21, 2023
SRATTA
Public archive
Implementation of the SRATTA paper
Python
•
MIT License
•1•4•0•0•Updated May 26, 2023May 26, 2023
pca_substrafl
Public
A high-level federated learning Python library used to run complex federated learning experiments at scale on a Substra network
Python
•
Apache License 2.0
•4•1•0•0•Updated Feb 20, 2023Feb 20, 2023
pacpaint
Public
environment--development bu--dept-rnd owner--csaillard
Python
•
Other
•3•0•2•0•Updated Feb 20, 2023Feb 20, 2023
CovadjustSim
Public
Simulation Studies of the effect of covariate adjustment on the statistical power of treatment effect estimation in a clinical tiral
r simulation
R
•
Other
•0•2•0•0•Updated Feb 7, 2023Feb 7, 2023