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1st-place-solution-single-cell-pbs

This repository implements the winning solution for the single cell perturbation problems

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

ai4scup-llm-rank4

AI4S Cup -LLM挑战赛-大模型提取“基因-疾病-药物”知识图谱-解决方案-Rank4

allcools

Toolkit for single-cell DNA methylation analysis.

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, ... 🧠

attentionpert

awesome-agents-biology-papers

awesome-deep-learning-single-cell-papers

awesome-diffusion-models

A collection of resources and papers on Diffusion Models

awesome-graph-transformer

Papers about graph transformers.

bering

bering_analysis

Data analysis and result generation in the Bering paper

cadasstre

Cross-platform data for sequencing-based spatial transcriptomics benchmarking

cell2sentence-ft

Cell2Sentence turns scRNA-seq data into text for LLM training.

cellfm

cellplm

A placeholder repo for releasing source codes of CellPLM model.

cellpolaris

CellPolaris

cellt

An offical repo for paper "Single-cells are Spatial Tokens: Transformers for Spatially Resolved Transcriptomics Data Imputation"

chatcell

ChatCell: Facilitating Single-Cell Analysis with Natural Language

conch

A vision-language foundation model for computational pathology - Nature Medicine

cs224n-win2223

Code and written solutions of the assignments of the Stanford CS224N: Natural Language Processing with Deep Learning course from winter 2022/2023

cs231n

Shortest solutions for CS231n 2021-2023

dance

DANCE: A Deep Learning Library and Benchmark Platform for Single-Cell Analysis

ddp-tutorial-series

Follow the pytorch tutorial tutorial to learn how to use nn.parallel.DistributedDataParallel to speed up training

deepmaps

Single-cell biological network inference using a heterogeneous graph transformer

deeppurpose

A Deep Learning Toolkit for DTI, Drug Property, PPI, DDI, Protein Function Prediction (Bioinformatics)

denoising-diffusion-pytorch

Implementation of Denoising Diffusion Probabilistic Model in Pytorch

evaluate_llms_to_genes

evo

DNA foundation modeling from molecular to genome scale

foundation-model-single-cell-papers