High-dimensional Interpretation for Physiological Patterns in Intercellular Electrophysiology (HIPPIE), a cVAE framework designed for multimodal neuron classification and clustering by integrating …

Coding exercises for Neural Data Science at CSHL in 2019

PyTorch implementation of "Neural Optimal Transport" (ICLR 2023 Spotlight)

Readymade evaluators for agent trajectories

bloom - evaluate any behavior immediately  🌸🌱

Package for the analysis of Transcripts outside segmented cells in ST data

21 Lessons, Get Started Building with Generative AI

Hackable implementation & tutorials for diffusion models 🦖

A general memory system for agents, powered by deep-research

a generalist algorithm for cellular segmentation with human-in-the-loop capabilities

A PyTorch library for implementing flow matching algorithms, featuring continuous and discrete flow matching implementations. It includes practical examples for both text and image modalities.

Repository for the scLiTr (single-cell Lineage Tracing analysis) python package

We turn natural language descriptions of behaviors into machine-executable code

scPortrait is a scalable toolkit to generate single-cell representations from raw microscopy images

DeepAnalyze is the first agentic LLM for autonomous data science. 🎈你的AI数据分析师，自动分析大量数据，一键生成专业分析报告！

A langchain agent that retries

CellRank: dynamics from multi-view single-cell data

Paper2Agent is a multi-agent AI system that automatically transforms research papers into interactive AI agents with minimal human input.

Build effective agents using Model Context Protocol and simple workflow patterns

AIND pipeline for processing extracellular electrophysiology data

Modelling human health trajectories using generative transformers

This repository contains advanced LLM-based chatbots for Q&A using LLM agents, and Retrieval Augmented Generation (RAG) and with different databases. (VectorDB, GraphDB, SQLite, CSV, XLSX, etc.)

Multi-omic single-cell optimal transport tools

Trainable, memory-efficient, and GPU-friendly PyTorch reproduction of AlphaFold 2

inferring regulatory cellular dynamics

Multi-agent LLM driven cell type annotation for single-cell RNA-Seq data

Single-cell analysis in Python. Scales to >100M cells.