MCP server for bioinformatics agent skills — query a knowledge graph of 78 bioinformatics workflows directly from Claude Code

Hundreds of agent skills for medical research, including protocol design, data analysis, evidence insights, and academic writing.

🐍 Community-driven Python implementation of TOON

🎒 Token-Oriented Object Notation (TOON) – compact, human-readable serialization of JSON data for LLM prompts. TypeScript SDK, CLI, benchmarks.

Generation of diagrams like flowcharts or sequence diagrams from text in a similar manner as markdown

An MCP server for querying SPARQL endpoint.

Developer APIs to Accelerate LLM Projects

Graphormer is a general-purpose deep learning backbone for molecular modeling.

Biological foundation modeling from molecular to genome scale

NSDF Software Development Life Cycle Procedures

Understanding Deep Learning - Simon J.D. Prince

Collection of public APIs for embedding scientific papers

The home of the Jupyter notebook graph visualization widget powered by yFiles for HTML

library supporting NLP and CV research on scientific papers

The Levenshtein Python C extension module contains functions for fast computation of Levenshtein distance and string similarity

The Levenshtein Python C extension module contains functions for fast computation of Levenshtein distance and string similarity

[Paper List] Papers integrating knowledge graphs (KGs) and large language models (LLMs)

Langchain + Docker + Neo4j + Ollama

Community effort to build a Neo4j Knowledge Graph (KG) that links heterogeneous data about COVID-19

Python toolkit for NCBI metadata (via eutils) and pubmed article text mining -- official primary repo.

ETL of ClinicalTrials.gov data for NCATS Biomedical Translator

PubMedQA: A Dataset for Biomedical Research Question Answering

LLM training code for Databricks foundation models

A high-performance library for compressed ND arrays and columnar tables, with compute and indexing engines