ONERAI's repositories
2024-AI4S-Cup-LLM-Challenge
2024AI4S Cup - LLM挑战赛 - 大模型提取“基因-疾病-药物”知识图谱 rank7方案
annotated_deep_learning_paper_implementations
🧑🏫 59 Implementations/tutorials of deep learning papers with side-by-side notes 📝; including transformers (original, xl, switch, feedback, vit, ...), optimizers (adam, adabelief, ...), gans(cyclegan, stylegan2, ...), 🎮 reinforcement learning (ppo, dqn), capsnet, distillation, ... 🧠
awesome-graph-transformer
Papers about graph transformers.
CellPLM
A placeholder repo for releasing source codes of CellPLM model.
CellPolaris
CellPolaris
CONCH
A vision-language foundation model for computational pathology - Nature Medicine
dance
DANCE: A Deep Learning Library and Benchmark Platform for Single-Cell Analysis
denoising-diffusion-pytorch
Implementation of Denoising Diffusion Probabilistic Model in Pytorch
evo
DNA foundation modeling from molecular to genome scale
GEARS
GEARS is a geometric deep learning model that predicts outcomes of novel multi-gene perturbations
Geneverse
This is the official code repo for the paper: Geneverse: A collection of Open-source Multimodal Large Language Models for Genomic and Proteomic Research.
masterpraktikum_ssl_segmentation
Repository accompanying the 2024 Masterpraktikum Project: Integrative Analysis of Histological Images and Gene Expression Data for Pathological Region Classification
multinichenetr
MultiNicheNet: a flexible framework for differential cell-cell communication analysis from multi-sample multi-condition single-cell transcriptomics data
NEST
Implementation of NEST method
nichecompass
End-to-end analysis of spatial multi-omics data
nichecompass-reproducibility
Reproducible analyses for the nichecompass manuscript
PRML_vagmcs
PRML notes, proofs and algorithms implemented in Python
SANGO
The official implementation for "SANGO".
sc_target_evidence
Meta-analysis of drug target evidence in single-cell data
scELMo
Codes for paper: scELMo: Embeddings from Language Models are Good Learners for Singel-cell Data Analysis
scEval
Codes for paper: Evaluating the Utilities of Large Language Models in Single-cell Data Analysis.
scLLMBench
scLLMBench: A fexible framework for accelerating single-cell foundation model benchmarking
spatial_benchmark
Code to reproduce analysis from Cook et al., bioRxiv, 2023
udlbook
Understanding Deep Learning - Simon J.D. Prince