cmungall

duckdb

DuckDB is an analytical in-process SQL database management system

aider

aider is AI pair programming in your terminal

dbt-core

dbt enables data analysts and engineers to transform their data using the same practices that software engineers use to build applications.

mercury

Convert Jupyter Notebooks to Web Apps

egglog

egraphs + datalog!

fltr

Like grep but for natural language questions. Based on Mistral 7B or Mixtral 8x7B.

duckdb_engine

SQLAlchemy driver for DuckDB

duckdb-prql

PRQL as a DuckDB extension

llm-claude-3

LLM plugin for interacting with the Claude 3 family of models

pydantic-cli

Turn Pydantic defined Data Models into CLI Tools

ProtST

[ICML-23 ORAL] ProtST: Multi-Modality Learning of Protein Sequences and Biomedical Texts

egglog0

Datalog + Egg = Good

jinjanator

Jinja2 Command-Line Tool, reworked, again

clorm

🗃️ A Python ORM-like interface for the Clingo Answer Set Programming (ASP) reasoner

datasette-parquet

Add DuckDB, Parquet, CSV and JSON lines support to Datasette

CAFA-evaluator

A Python Tool for Benchmarking Ontological Classification Methods

numpydantic

Type and shape validation and serialization for numpy arrays in pydantic models

duckegg

An experiment in using DuckDB for a datalog / egg

microtrait

gpt-pull-bot

snakelog

A Datalog Framework for Python

linkml-store

wrapper for multiple linkml storage engines (alpha software)

ontobot-change-agent

A GitHub bot for modifying ontology resources.

pyphetools

Python Phenopacket Tools

rdf-star-souffle

A toolkit for reasoning about RDF-star in Soufflé, including an OWL reasoner

clingo

SWI-Prolog Clingo interface

linkml-solr

Simple wrapper for using Solr with LinkML schemas

files-to-prompt-ts

A command-line tool to concatenate files and directories in a structured way to a single prompt for use with large language models and other applications.

hra-vccf

HRA VCCF: Human Reference Atlas - Vasculature Common Coordinate Framework

semsql

SemSQL: standard SQL views for RDF/OWL ontologies This project provides a standard collection of SQL tables/views for ontologies, such that you can make queries like this, to find all terms starting with Abnormality in HPO.