NVIDIA BioNeMo Framework is a collection of programming tools, libraries, and models for computational drug discovery. It accelerates building and adapting biomolecular AI models by providing domain-specific, optimized models and tooling for GPU-based computational resources. The framework offers comprehensive documentation and support for both community and enterprise users.

LLM-on-Ray is a comprehensive solution for building, customizing, and deploying Large Language Models (LLMs). It simplifies complex processes into manageable steps by leveraging the power of Ray for distributed computing. The tool supports pretraining, finetuning, and serving LLMs across various hardware setups, incorporating industry and Intel optimizations for performance. It offers modular workflows with intuitive configurations, robust fault tolerance, and scalability. Additionally, it provides an Interactive Web UI for enhanced usability, including a chatbot application for testing and refining models.

llama_deploy is an async-first framework for deploying, scaling, and productionizing agentic multi-service systems based on workflows from llama_index. It allows building workflows in llama_index and deploying them seamlessly with minimal changes to code. The system includes services endlessly processing tasks, a control plane managing state and services, an orchestrator deciding task handling, and fault tolerance mechanisms. It is designed for high-concurrency scenarios, enabling real-time and high-throughput applications.

Tracecat is an open-source automation platform for security teams. It's designed to be simple but powerful, with a focus on AI features and a practitioner-obsessed UI/UX. Tracecat can be used to automate a variety of tasks, including phishing email investigation, evidence collection, and remediation plan generation.

R1-searcher is a tool designed to incentivize the search capability in large reasoning models (LRMs) via reinforcement learning. It enables LRMs to invoke web search and obtain external information during the reasoning process by utilizing a two-stage outcome-supervision reinforcement learning approach. The tool does not require instruction fine-tuning for cold start and is compatible with existing Base LLMs or Chat LLMs. It includes training code, inference code, model checkpoints, and a detailed technical report.

BESSER is a low-modeling low-code open-source platform funded by an FNR Pearl grant. It is built on B-UML, a Python-based interpretation of a 'Universal Modeling Language'. Users can specify their software application using B-UML and generate executable code for various applications like Django models or SQLAlchemy-compatible database structures. BESSER is available on PyPi and can be installed with pip. It supports popular Python IDEs and encourages contributions from the community.

Synthora is a lightweight and extensible framework for LLM-driven Agents and ALM research. It aims to simplify the process of building, testing, and evaluating agents by providing essential components. The framework allows for easy agent assembly with a single config, reducing the effort required for tuning and sharing agents. Although in early development stages with unstable APIs, Synthora welcomes feedback and contributions to enhance its stability and functionality.

Apache Airavata is a software framework for executing and managing computational jobs on distributed computing resources. It supports local clusters, supercomputers, national grids, academic and commercial clouds. Airavata utilizes service-oriented computing, distributed messaging, and workflow composition. It includes a server package with an API, client SDKs, and a general-purpose UI implementation called Apache Airavata Django Portal.

Sirji is an agentic AI framework for software development where various AI agents collaborate via a messaging protocol to solve software problems. It uses standard or user-generated recipes to list tasks and tips for problem-solving. Agents in Sirji are modular AI components that perform specific tasks based on custom pseudo code. The framework is currently implemented as a Visual Studio Code extension, providing an interactive chat interface for problem submission and feedback. Sirji sets up local or remote development environments by installing dependencies and executing generated code.

Curated Transformers is a transformer library for PyTorch that provides state-of-the-art models composed of reusable components. It supports various transformer architectures, including encoders like ALBERT, BERT, and RoBERTa, and decoders like Falcon, Llama, and MPT. The library emphasizes consistent type annotations, minimal dependencies, and ease of use for education and research. It has been production-tested by Explosion and will be the default transformer implementation in spaCy 3.7.

Panel Cleaner is a tool that uses machine learning to find text in images and generate masks to cover it up with high accuracy. It is designed to clean text bubbles without leaving artifacts, avoiding painting over non-text parts, and inpainting bubbles that can't be masked out. The tool offers various customization options, detailed analytics on the cleaning process, supports batch processing, and can run OCR on pages. It supports CUDA acceleration, multiple themes, and can handle bubbles on any solid grayscale background color. Panel Cleaner is aimed at saving time for cleaners by automating monotonous work and providing precise cleaning of text bubbles.

ArcticTraining is a framework designed to simplify and accelerate the post-training process for large language models (LLMs). It offers modular trainer designs, simplified code structures, and integrated pipelines for creating and cleaning synthetic data, enabling users to enhance LLM capabilities like code generation and complex reasoning with greater efficiency and flexibility.

The Codebase Context Specification (CCS) project aims to standardize embedding contextual information within codebases to enhance understanding for both AI and human developers. It introduces a convention similar to `.env` and `.editorconfig` files but focused on documenting code for both AI and humans. By providing structured contextual metadata, collaborative documentation guidelines, and standardized context files, developers can improve code comprehension, collaboration, and development efficiency. The project includes a linter for validating context files and provides guidelines for using the specification with AI assistants. Tooling recommendations suggest creating memory systems, IDE plugins, AI model integrations, and agents for context creation and utilization. Future directions include integration with existing documentation systems, dynamic context generation, and support for explicit context overriding.

Craftium is an open-source platform based on the Minetest voxel game engine and the Gymnasium and PettingZoo APIs, designed for creating fast, rich, and diverse single and multi-agent environments. It allows for connecting to Craftium's Python process, executing actions as keyboard and mouse controls, extending the Lua API for creating RL environments and tasks, and supporting client/server synchronization for slow agents. Craftium is fully extensible, extensively documented, modern RL API compatible, fully open source, and eliminates the need for Java. It offers a variety of environments for research and development in reinforcement learning.

olmOCR is a toolkit designed for training language models to work with PDF documents in real-world scenarios. It includes various components such as a prompting strategy for natural text parsing, an evaluation toolkit for comparing pipeline versions, filtering by language and SEO spam removal, finetuning code for specific models, processing PDFs through a finetuned model, and viewing documents created from PDFs. The toolkit requires a recent NVIDIA GPU with at least 20 GB of RAM and 30GB of free disk space. Users can install dependencies, set up a conda environment, and utilize olmOCR for tasks like converting single or multiple PDFs, viewing extracted text, and running batch inference pipelines.

ChemBench is a project aimed at expanding chemistry benchmark tasks in a BIG-bench compatible way, providing a pipeline to benchmark frontier and open models. It allows users to run benchmarking tasks on models with existing presets, offering predefined parameters and processing steps. The library facilitates benchmarking models on the entire suite, addressing challenges such as prompt structure, parsing, and scoring methods. Users can contribute to the project by following the developer notes.

Generative-AI-Drug-Discovery is a public repository on GitHub focused on using tensor network machine learning approaches to accelerate GenAI for drug discovery. The repository aims to implement effective architectures and methodologies into Large Language Models (LLMs) to enhance Drug Discovery Generative AI performance.

NVIDIA BioNeMo Framework is a collection of programming tools, libraries, and models for computational drug discovery. It accelerates building and adapting biomolecular AI models by providing domain-specific, optimized models and tooling for GPU-based computational resources. The framework offers comprehensive documentation and support for both community and enterprise users.

New AI Drug Discovery is a repository focused on the applications of Large Language Models (LLM) in drug discovery. It provides resources, tools, and examples for leveraging LLM technology in the pharmaceutical industry. The repository aims to showcase the potential of using AI-driven approaches to accelerate the drug discovery process, improve target identification, and optimize molecular design. By exploring the intersection of artificial intelligence and drug development, this repository offers insights into the latest advancements in computational biology and cheminformatics.

Welcome to the μLearn x Pathway Initiative, an exciting adventure into the world of Artificial Intelligence (AI)! This comprehensive course, developed in collaboration with Pathway, will empower you with the knowledge and skills needed to navigate the fascinating world of AI, with a special focus on Large Language Models (LLMs).

Autonomous agents are designed to achieve specific objectives through self-guided instructions. With the emergence and growth of large language models (LLMs), there is a growing trend in utilizing LLMs as fundamental controllers for these autonomous agents. This repository conducts a comprehensive survey study on the construction, application, and evaluation of LLM-based autonomous agents. It explores essential components of AI agents, application domains in natural sciences, social sciences, and engineering, and evaluation strategies. The survey aims to be a resource for researchers and practitioners in this rapidly evolving field.

Firebase Genkit (beta) is a framework with powerful tooling to help app developers build, test, deploy, and monitor AI-powered features with confidence. Genkit is cloud optimized and code-centric, integrating with many services that have free tiers to get started. It provides unified API for generation, context-aware AI features, evaluation of AI workflow, extensibility with plugins, easy deployment to Firebase or Google Cloud, observability and monitoring with OpenTelemetry, and a developer UI for prototyping and testing AI features locally. Genkit works seamlessly with Firebase or Google Cloud projects through official plugins and templates.

The Vector Cookbook is a collection of recipes and sample application starter kits for building AI applications with LLMs using PostgreSQL and Timescale Vector. Timescale Vector enhances PostgreSQL for AI applications by enabling the storage of vector, relational, and time-series data with faster search, higher recall, and more efficient time-based filtering. The repository includes resources, sample applications like TSV Time Machine, and guides for creating, storing, and querying OpenAI embeddings with PostgreSQL and pgvector. Users can learn about Timescale Vector, explore performance benchmarks, and access Python client libraries and tutorials.

The W3C Cognitive AI Community Group focuses on advancing Cognitive AI through collaboration on defining use cases, open source implementations, and application areas. The group aims to demonstrate the potential of Cognitive AI in various domains such as customer services, healthcare, cybersecurity, online learning, autonomous vehicles, manufacturing, and web search. They work on formal specifications for chunk data and rules, plausible knowledge notation, and neural networks for human-like AI. The group positions Cognitive AI as a combination of symbolic and statistical approaches inspired by human thought processes. They address research challenges including mimicry, emotional intelligence, natural language processing, and common sense reasoning. The long-term goal is to develop cognitive agents that are knowledgeable, creative, collaborative, empathic, and multilingual, capable of continual learning and self-awareness.

AlphaFold3 is an implementation of the Alpha Fold 3 model in PyTorch for accurate structure prediction of biomolecular interactions. It includes modules for genetic diffusion and full model examples for forward pass computations. The tool allows users to generate random pair and single representations, operate on atomic coordinates, and perform structure predictions based on input tensors. The implementation also provides functionalities for training and evaluating the model.

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.

ADMET-AI is a platform for ADMET prediction using Chemprop-RDKit models trained on ADMET datasets from the Therapeutics Data Commons. It offers command line, Python API, and web server interfaces for making ADMET predictions on new molecules. The platform can be easily installed using pip and supports GPU acceleration. It also provides options for processing TDC data, plotting results, and hosting a web server. ADMET-AI is a machine learning platform for evaluating large-scale chemical libraries.

AI-Drug-Discovery-Design is a repository focused on Artificial Intelligence-assisted Drug Discovery and Design. It explores the use of AI technology to accelerate and optimize the drug development process. The advantages of AI in drug design include speeding up research cycles, improving accuracy through data-driven models, reducing costs by minimizing experimental redundancies, and enabling personalized drug design for specific patients or disease characteristics.

NVIDIA BioNeMo Framework is a collection of programming tools, libraries, and models for computational drug discovery. It accelerates building and adapting biomolecular AI models by providing domain-specific, optimized models and tooling for GPU-based computational resources. The framework offers comprehensive documentation and support for both community and enterprise users.

New AI Drug Discovery is a repository focused on the applications of Large Language Models (LLM) in drug discovery. It provides resources, tools, and examples for leveraging LLM technology in the pharmaceutical industry. The repository aims to showcase the potential of using AI-driven approaches to accelerate the drug discovery process, improve target identification, and optimize molecular design. By exploring the intersection of artificial intelligence and drug development, this repository offers insights into the latest advancements in computational biology and cheminformatics.

GROMACS Copilot is an agent designed to automate molecular dynamics simulations for proteins in water using GROMACS. It handles system setup, simulation execution, and result analysis automatically, providing outputs such as RMSD, RMSF, Rg, and H-bonds. Users can interact with the agent through prompts and API keys from DeepSeek and OpenAI. The tool aims to simplify the process of running MD simulations, allowing users to focus on other tasks while it handles the technical aspects of the simulations.

Biomni is a general-purpose biomedical AI agent designed to autonomously execute a wide range of research tasks across diverse biomedical subfields. By integrating cutting-edge large language model (LLM) reasoning with retrieval-augmented planning and code-based execution, Biomni helps scientists dramatically enhance research productivity and generate testable hypotheses.