HelloWorldLTY

scEval

Codes for paper: Evaluating the Utilities of Large Language Models in Single-cell Data Analysis.

MuSe-GNN

[NeurIPS 2023] Official codes of "MuSe-GNN: Learning Unified Gene Representation From Multimodal Biological Graph Data"

scELMo

Codes for paper: scELMo: Embeddings from Language Models are Good Learners for Single-cell Data Analysis

Geneverse

[EMNLP 2024] This is the official code repo for the paper: Geneverse: A collection of Open-source Multimodal Large Language Models for Genomic and Proteomic Research.

BAITSAO

A foundation model for drug synergy analysis

VISTA

Awesome-DNA-Language-Modelling

This is a repo for papers/projects focusing on DNA sequence modelling

MOK

A mixture of experts version of KANs

propr_python

This is a python implementation of r package propr: https://www.nature.com/articles/s41598-017-16520-0

RobustCell

HelloWorldLTY.github.io

Github Pages template for academic personal websites, forked from mmistakes/minimal-mistakes

APPFL

Advanced Privacy-Preserving Federated Learning framework

BEND

Benchmarking DNA Language Models on Biologically Meaningful Tasks

dance

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

DeepCTR

Easy-to-use,Modular and Extendible package of deep-learning based CTR models .

DeepRobust

A pytorch adversarial library for attack and defense methods on images and graphs

DNABERT_S

DNABERT_S: Learning Species-Aware DNA Embedding with Genome Foundation Models

ENVI

EPInformer

code to run EPInformer for gene expression prediction and gene-enhancer links prioritization

evaluate

🤗 Evaluate: A library for easily evaluating machine learning models and datasets.

GEARS

GEARS is a geometric deep learning model that predicts outcomes of novel multi-gene perturbations

GeneCompass

GeneCompass

GLUE

Graph-linked unified embedding for single-cell multi-omics data integration

guidance

A guidance language for controlling large language models.

ldsc

LD Score Regression (LDSC)

LucaOneApp

LucaOne’s representational inference code. Use this project for embedding inference.

MiniCPM-V

MiniCPM-Llama3-V 2.5: A GPT-4V Level Multimodal LLM on Your Phone

scDRS

Single-cell disease relevance score (scDRS)

scFoundation

scvi-tools

Deep probabilistic analysis of single-cell omics data