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.

OpenedAI Speech is a free, private text-to-speech server compatible with the OpenAI audio/speech API. It offers custom voice cloning and supports various models like tts-1 and tts-1-hd. Users can map their own piper voices and create custom cloned voices. The server provides multilingual support with XTTS voices and allows fixing incorrect sounds with regex. Recent changes include bug fixes, improved error handling, and updates for multilingual support. Installation can be done via Docker or manual setup, with usage instructions provided. Custom voices can be created using Piper or Coqui XTTS v2, with guidelines for preparing audio files. The tool is suitable for tasks like generating speech from text, creating custom voices, and multilingual text-to-speech applications.

AIMNet2 Calculator is a package that integrates the AIMNet2 neural network potential into simulation workflows, providing fast and reliable energy, force, and property calculations for molecules with diverse elements. It excels at modeling various systems, offers flexible interfaces for popular simulation packages, and supports long-range interactions using DSF or Ewald summation Coulomb models. The tool is designed for accurate and versatile molecular simulations, suitable for large molecules and periodic calculations.

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! 🚀

Cursive is a universal and intuitive framework for interacting with LLMs. It is extensible, allowing users to hook into any part of a completion life cycle. Users can easily describe functions that LLMs can use with any supported model. Cursive aims to bridge capabilities between different models, providing a single interface for users to choose any model. It comes with built-in token usage and costs calculations, automatic retry, and model expanding features. Users can define and describe functions, generate Pydantic BaseModels, hook into completion life cycle, create embeddings, and configure retry and model expanding behavior. Cursive supports various models from OpenAI, Anthropic, OpenRouter, Cohere, and Replicate, with options to pass API keys for authentication.

VideoDB Python SDK allows you to interact with the VideoDB serverless database. Manage videos as intelligent data, not files. It's scalable, cost-efficient & optimized for AI applications and LLM integration. The SDK provides functionalities for uploading videos, viewing videos, streaming specific sections of videos, searching inside a video, searching inside multiple videos in a collection, adding subtitles to a video, generating thumbnails, and more. It also offers features like indexing videos by spoken words, semantic indexing, and future indexing options for scenes, faces, and specific domains like sports. The SDK aims to simplify video management and enhance AI applications with video data.

Upgini is an intelligent data search engine with a Python library that helps users find and add relevant features to their ML pipeline from various public, community, and premium external data sources. It automates the optimization of connected data sources by generating an optimal set of machine learning features using large language models, GraphNNs, and recurrent neural networks. The tool aims to simplify feature search and enrichment for external data to make it a standard approach in machine learning pipelines. It democratizes access to data sources for the data science community.

DataDreamer is an advanced toolkit designed to facilitate the development of edge AI models by enabling synthetic data generation, knowledge extraction from pre-trained models, and creation of efficient and potent models. It eliminates the need for extensive datasets by generating synthetic datasets, leverages latent knowledge from pre-trained models, and focuses on creating compact models suitable for integration into any device and performance for specialized tasks. The toolkit offers features like prompt generation, image generation, dataset annotation, and tools for training small-scale neural networks for edge deployment. It provides hardware requirements, usage instructions, available models, and limitations to consider while using the library.

Bonito is an open-source model for conditional task generation, converting unannotated text into task-specific training datasets for instruction tuning. It is a lightweight library built on top of Hugging Face `transformers` and `vllm` libraries. The tool supports various task types such as question answering, paraphrase generation, sentiment analysis, summarization, and more. Users can easily generate synthetic instruction tuning datasets using Bonito for zero-shot task adaptation.

nano-GraphRAG is a simple, easy-to-hack implementation of GraphRAG that provides a smaller, faster, and cleaner version of the official implementation. It is about 800 lines of code, small yet scalable, asynchronous, and fully typed. The tool supports incremental insert, async methods, and various parameters for customization. Users can replace storage components and LLM functions as needed. It also allows for embedding function replacement and comes with pre-defined prompts for entity extraction and community reports. However, some features like covariates and global search implementation differ from the original GraphRAG. Future versions aim to address issues related to data source ID, community description truncation, and add new components.

LitServe is a high-throughput serving engine for deploying AI models at scale. It generates an API endpoint for a model, handles batching, streaming, autoscaling across CPU/GPUs, and more. Built for enterprise scale, it supports every framework like PyTorch, JAX, Tensorflow, and more. LitServe is designed to let users focus on model performance, not the serving boilerplate. It is like PyTorch Lightning for model serving but with broader framework support and scalability.

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.

DeepPavlov is an open-source conversational AI library built on PyTorch. It is designed for the development of production-ready chatbots and complex conversational systems, as well as for research in the area of NLP and dialog systems. The library offers a wide range of models for tasks such as Named Entity Recognition, Intent/Sentence Classification, Question Answering, Sentence Similarity/Ranking, Syntactic Parsing, and more. DeepPavlov also provides embeddings like BERT, ELMo, and FastText for various languages, along with AutoML capabilities and integrations with REST API, Socket API, and Amazon AWS.

The Hume AI Python SDK allows users to integrate Hume APIs directly into their Python applications. Users can access complete documentation, quickstart guides, and example notebooks to get started. The SDK is designed to provide support for Hume's expressive communication platform built on scientific research. Users are encouraged to create an account at beta.hume.ai and stay updated on changes through Discord. The SDK may undergo breaking changes to improve tooling and ensure reliable releases in the future.

Python-tgpt is a Python package that enables seamless interaction with over 45 free LLM providers without requiring an API key. It also provides image generation capabilities. The name _python-tgpt_ draws inspiration from its parent project tgpt, which operates on Golang. Through this Python adaptation, users can effortlessly engage with a number of free LLMs available, fostering a smoother AI interaction experience.

LLM Functions is a project that enables the enhancement of large language models (LLMs) with custom tools and agents developed in bash, javascript, and python. Users can create tools for their LLM to execute system commands, access web APIs, or perform other complex tasks triggered by natural language prompts. The project provides a framework for building tools and agents, with tools being functions written in the user's preferred language and automatically generating JSON declarations based on comments. Agents combine prompts, function callings, and knowledge (RAG) to create conversational AI agents. The project is designed to be user-friendly and allows users to easily extend the capabilities of their language models.

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.