AICSImageIO is a Python tool for Image Reading, Metadata Conversion, and Image Writing for Microscopy Images. It supports various file formats like OME-TIFF, TIFF, ND2, DV, CZI, LIF, PNG, GIF, and Bio-Formats. Users can read and write metadata and imaging data, work with different file systems like local paths, HTTP URLs, s3fs, and gcsfs. The tool provides functionalities for full image reading, delayed image reading, mosaic image reading, metadata reading, xarray coordinate plane attachment, cloud IO support, and saving to OME-TIFF. It also offers benchmarking and developer resources.

RAGLite is a Python toolkit for Retrieval-Augmented Generation (RAG) with PostgreSQL or SQLite. It offers configurable options for choosing LLM providers, database types, and rerankers. The toolkit is fast and permissive, utilizing lightweight dependencies and hardware acceleration. RAGLite provides features like PDF to Markdown conversion, multi-vector chunk embedding, optimal semantic chunking, hybrid search capabilities, adaptive retrieval, and improved output quality. It is extensible with a built-in Model Context Protocol server, customizable ChatGPT-like frontend, document conversion to Markdown, and evaluation tools. Users can configure RAGLite for various tasks like configuring, inserting documents, running RAG pipelines, computing query adapters, evaluating performance, running MCP servers, and serving frontends.

HQQ is a fast and accurate model quantizer that skips the need for calibration data. It's super simple to implement (just a few lines of code for the optimizer). It can crunch through quantizing the Llama2-70B model in only 4 minutes! 🚀

ChatSim is a tool designed for editable scene simulation for autonomous driving via LLM-Agent collaboration. It provides functionalities for setting up the environment, installing necessary dependencies like McNeRF and Inpainting tools, and preparing data for simulation. Users can train models, simulate scenes, and track trajectories for smoother and more realistic results. The tool integrates with Blender software and offers options for training McNeRF models and McLight's skydome estimation network. It also includes a trajectory tracking module for improved trajectory tracking. ChatSim aims to facilitate the simulation of autonomous driving scenarios with collaborative LLM-Agents.

ShellChatGPT is a shell wrapper for OpenAI's ChatGPT, DALL-E, Whisper, and TTS, featuring integration with LocalAI, Ollama, Gemini, Mistral, Groq, and GitHub Models. It provides text and chat completions, vision, reasoning, and audio models, voice-in and voice-out chatting mode, text editor interface, markdown rendering support, session management, instruction prompt manager, integration with various service providers, command line completion, file picker dialogs, color scheme personalization, stdin and text file input support, and compatibility with Linux, FreeBSD, MacOS, and Termux for a responsive experience.

llama.vim is a plugin that provides local LLM-assisted text completion for Vim users. It offers features such as auto-suggest on cursor movement, manual suggestion toggling, suggestion acceptance with Tab and Shift+Tab, control over text generation time, context configuration, ring context with chunks from open and edited files, and performance stats display. The plugin requires a llama.cpp server instance to be running and supports FIM-compatible models. It aims to be simple, lightweight, and provide high-quality and performant local FIM completions even on consumer-grade hardware.

A high-performance TensorFlow Lite library for React Native that utilizes JSI for power, zero-copy ArrayBuffers for efficiency, and low-level C/C++ TensorFlow Lite core API for direct memory access. It supports swapping out TensorFlow Models at runtime and GPU-accelerated delegates like CoreML/Metal/OpenGL. Easy VisionCamera integration allows for seamless usage. Users can load TensorFlow Lite models, interpret input and output data, and utilize GPU Delegates for faster computation. The library is suitable for real-time object detection, image classification, and other machine learning tasks in React Native applications.

Models.dev is an open-source database providing detailed specifications, pricing, and capabilities of various AI models. It serves as a centralized platform for accessing information on AI models, allowing users to contribute and utilize the data through an API. The repository contains data stored in TOML files, organized by provider and model, along with SVG logos. Users can contribute by adding new models following specific guidelines and submitting pull requests for validation. The project aims to maintain an up-to-date and comprehensive database of AI model information.

STaRK is a large-scale semi-structure retrieval benchmark on Textual and Relational Knowledge Bases. It provides natural-sounding and practical queries crafted to incorporate rich relational information and complex textual properties, closely mirroring real-life scenarios. The benchmark aims to assess how effectively large language models can handle the interplay between textual and relational requirements in queries, using three diverse knowledge bases constructed from public sources.

Pax is a framework to configure and run machine learning experiments on top of Jax.

Wllama is a WebAssembly binding for llama.cpp, a high-performance and lightweight language model library. It enables you to run inference directly on the browser without the need for a backend or GPU. Wllama provides both high-level and low-level APIs, allowing you to perform various tasks such as completions, embeddings, tokenization, and more. It also supports model splitting, enabling you to load large models in parallel for faster download. With its Typescript support and pre-built npm package, Wllama is easy to integrate into your React Typescript projects.

An open-source client package that allows developers to easily integrate the power of OpenAI's state-of-the-art AI models into their Dart/Flutter applications. The library provides simple and intuitive methods for making requests to OpenAI's various APIs, including the GPT-3 language model, DALL-E image generation, and more. It is designed to be lightweight and easy to use, enabling developers to focus on building their applications without worrying about the complexities of dealing with HTTP requests. Note that this is an unofficial library as OpenAI does not have an official Dart library.

LangServe helps developers deploy `LangChain` runnables and chains as a REST API. This library is integrated with FastAPI and uses pydantic for data validation. In addition, it provides a client that can be used to call into runnables deployed on a server. A JavaScript client is available in LangChain.js.

Neural Speed is an innovative library designed to support the efficient inference of large language models (LLMs) on Intel platforms through the state-of-the-art (SOTA) low-bit quantization powered by Intel Neural Compressor. The work is inspired by llama.cpp and further optimized for Intel platforms with our innovations in NeurIPS' 2023

Metis is an open-source, AI-driven tool for deep security code review, created by Arm's Product Security Team. It helps engineers detect subtle vulnerabilities, improve secure coding practices, and reduce review fatigue. Metis uses LLMs for semantic understanding and reasoning, RAG for context-aware reviews, and supports multiple languages and vector store backends. It provides a plugin-friendly and extensible architecture, named after the Greek goddess of wisdom, Metis. The tool is designed for large, complex, or legacy codebases where traditional tooling falls short.

AICSImageIO is a Python tool for Image Reading, Metadata Conversion, and Image Writing for Microscopy Images. It supports various file formats like OME-TIFF, TIFF, ND2, DV, CZI, LIF, PNG, GIF, and Bio-Formats. Users can read and write metadata and imaging data, work with different file systems like local paths, HTTP URLs, s3fs, and gcsfs. The tool provides functionalities for full image reading, delayed image reading, mosaic image reading, metadata reading, xarray coordinate plane attachment, cloud IO support, and saving to OME-TIFF. It also offers benchmarking and developer resources.

cellseg-models.pytorch is a Python library built upon PyTorch for 2D cell/nuclei instance segmentation models. It provides multi-task encoder-decoder architectures and post-processing methods for segmenting cell/nuclei instances. The library offers high-level API to define segmentation models, open-source datasets for training, flexibility to modify model components, sliding window inference, multi-GPU inference, benchmarking utilities, regularization techniques, and example notebooks for training and finetuning models with different backbones.

AICSImageIO is a Python tool for Image Reading, Metadata Conversion, and Image Writing for Microscopy Images. It supports various file formats like OME-TIFF, TIFF, ND2, DV, CZI, LIF, PNG, GIF, and Bio-Formats. Users can read and write metadata and imaging data, work with different file systems like local paths, HTTP URLs, s3fs, and gcsfs. The tool provides functionalities for full image reading, delayed image reading, mosaic image reading, metadata reading, xarray coordinate plane attachment, cloud IO support, and saving to OME-TIFF. It also offers benchmarking and developer resources.

KG-RAG (Knowledge Graph-based Retrieval Augmented Generation) is a task agnostic framework that combines the explicit knowledge of a Knowledge Graph (KG) with the implicit knowledge of a Large Language Model (LLM). KG-RAG extracts "prompt-aware context" from a KG, which is defined as the minimal context sufficient enough to respond to the user prompt. This framework empowers a general-purpose LLM by incorporating an optimized domain-specific 'prompt-aware context' from a biomedical KG. KG-RAG is specifically designed for running prompts related to Diseases.

Scientific Large Language Models (Sci-LLMs) is a repository that collects papers on scientific large language models, focusing on biology and chemistry domains. It includes textual, molecular, protein, and genomic languages, as well as multimodal language. The repository covers various large language models for tasks such as molecule property prediction, interaction prediction, protein sequence representation, protein sequence generation/design, DNA-protein interaction prediction, and RNA prediction. It also provides datasets and benchmarks for evaluating these models. The repository aims to facilitate research and development in the field of scientific language modeling.

Generative AI models have shown tremendous usefulness in increasing accessibility and automation of a wide range of tasks. This repository contains the `biochatter` Python package, a generic backend library for the connection of biomedical applications to conversational AI. It aims to provide a common framework for deploying, testing, and evaluating diverse models and auxiliary technologies in the biomedical domain. BioChatter is part of the BioCypher ecosystem, connecting natively to BioCypher knowledge graphs.

ceLLama is a streamlined automation pipeline for cell type annotations using large-language models (LLMs). It operates locally to ensure privacy, provides comprehensive analysis by considering negative genes, offers efficient processing speed, and generates customized reports. Ideal for quick and preliminary cell type checks.

PINNACLE is a flexible geometric deep learning approach that trains on contextualized protein interaction networks to generate context-aware protein representations. It provides protein representations split across various cell-type contexts from different tissues and organs. The tool can be fine-tuned to study the genomic effects of drugs and nominate promising protein targets and cell-type contexts for further investigation. PINNACLE exemplifies the paradigm of incorporating context-specific effects for studying biological systems, especially the impact of disease and therapeutics.

Taiyi (太一) is a bilingual large language model fine-tuned for diverse biomedical tasks. It aims to facilitate communication between healthcare professionals and patients, provide medical information, and assist in diagnosis, biomedical knowledge discovery, drug development, and personalized healthcare solutions. The model is based on the Qwen-7B-base model and has been fine-tuned using rich bilingual instruction data. It covers tasks such as question answering, biomedical dialogue, medical report generation, biomedical information extraction, machine translation, title generation, text classification, and text semantic similarity. The project also provides standardized data formats, model training details, model inference guidelines, and overall performance metrics across various BioNLP tasks.