The Ersilia Model Hub is a unified platform of pre-trained AI/ML models dedicated to infectious and neglected disease research. It offers an open-source, low-code solution that provides seamless access to AI/ML models for drug discovery. Models housed in the hub come from two sources: published models from literature (with due third-party acknowledgment) and custom models developed by the Ersilia team or contributors.

Kaito is an operator that automates the AI/ML inference model deployment in a Kubernetes cluster. It manages large model files using container images, avoids tuning deployment parameters to fit GPU hardware by providing preset configurations, auto-provisions GPU nodes based on model requirements, and hosts large model images in the public Microsoft Container Registry (MCR) if the license allows. Using Kaito, the workflow of onboarding large AI inference models in Kubernetes is largely simplified.

Discover the journey of building a generative AI application using LangChain.js and Azure. This demo explores the development process from idea to production, using a RAG-based approach for a Q&A system based on YouTube video transcripts. The application allows to ask text-based questions about a YouTube video and uses the transcript of the video to generate responses. The code comes in two versions: local prototype using FAISS and Ollama with LLaMa3 model for completion and all-minilm-l6-v2 for embeddings, and Azure cloud version using Azure AI Search and GPT-4 Turbo model for completion and text-embedding-3-large for embeddings. Either version can be run as an API using the Azure Functions runtime.

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.

Agentok Studio is a visual tool built for AutoGen, a cutting-edge agent framework from Microsoft and various contributors. It offers intuitive visual tools to simplify the construction and management of complex agent-based workflows. Users can create workflows visually as graphs, chat with agents, and share flow templates. The tool is designed to streamline the development process for creators and developers working on next-generation Multi-Agent Applications.

This solution provides a low-code ReactJS application to prototype and vet business use cases for GenAI using Retrieval Augmented Generation (RAG). It includes a backend Flask application that uses LangChain to provide PDF data as embeddings to a text-gen model via Amazon Bedrock and a vector database with FAISS or Kendra Index. The solution utilizes Amazon Bedrock as the only cost-generating AWS service.

FlowTestAI is the world’s first GenAI powered OpenSource Integrated Development Environment (IDE) designed for crafting, visualizing, and managing API-first workflows. It operates as a desktop app, interacting with the local file system, ensuring privacy and enabling collaboration via version control systems. The platform offers platform-specific binaries for macOS, with versions for Windows and Linux in development. It also features a CLI for running API workflows from the command line interface, facilitating automation and CI/CD processes.

AI Exploits is a repository that showcases practical attacks against AI/Machine Learning infrastructure, aiming to raise awareness about vulnerabilities in the AI/ML ecosystem. It contains exploits and scanning templates for responsibly disclosed vulnerabilities affecting machine learning tools, including Metasploit modules, Nuclei templates, and CSRF templates. Users can use the provided Docker image to easily run the modules and templates. The repository also provides guidelines for using Metasploit modules, Nuclei templates, and CSRF templates to exploit vulnerabilities in machine learning tools.

Zep is an open-source platform for building and deploying large language model (LLM) applications. It provides a suite of tools and services that make it easy to integrate LLMs into your applications, including chat history memory, embedding, vector search, and data enrichment. Zep is designed to be scalable, reliable, and easy to use, making it a great choice for developers who want to build LLM-powered applications quickly and easily.

Gemma is a family of open-weights Large Language Model (LLM) by Google DeepMind, based on Gemini research and technology. This repository contains an inference implementation and examples, based on the Flax and JAX frameworks. Gemma can run on CPU, GPU, and TPU, with model checkpoints available for download. It provides tutorials, reference implementations, and Colab notebooks for tasks like sampling and fine-tuning. Users can contribute to Gemma through bug reports and pull requests. The code is licensed under the Apache License, Version 2.0.

This repository provides a ready-to-run basic Slack AI solution that allows users to summarize threads and channels using OpenAI. Users can generate thread summaries, channel overviews, channel summaries since a specific time, and full channel summaries. The tool is powered by GPT-3.5-Turbo and an ensemble of NLP models. It requires Python 3.8 or higher, an OpenAI API key, Slack App with associated API tokens, Poetry package manager, and ngrok for local development. Users can customize channel and thread summaries, run tests with coverage using pytest, and contribute to the project for future enhancements.

Council is an open-source platform designed for the rapid development and deployment of customized generative AI applications using teams of agents. It extends the LLM tool ecosystem by providing advanced control flow and scalable oversight for AI agents. Users can create sophisticated agents with predictable behavior by leveraging Council's powerful approach to control flow using Controllers, Filters, Evaluators, and Budgets. The framework allows for automated routing between agents, comparing, evaluating, and selecting the best results for a task. Council aims to facilitate packaging and deploying agents at scale on multiple platforms while enabling enterprise-grade monitoring and quality control.

VectorVein is a no-code AI workflow software inspired by LangChain and langflow, aiming to combine the powerful capabilities of large language models and enable users to achieve intelligent and automated daily workflows through simple drag-and-drop actions. Users can create powerful workflows without the need for programming, automating all tasks with ease. The software allows users to define inputs, outputs, and processing methods to create customized workflow processes for various tasks such as translation, mind mapping, summarizing web articles, and automatic categorization of customer reviews.

The Microsoft Health Intelligence Machine Learning Toolbox is a repository that provides low-level and high-level building blocks for Machine Learning / AI researchers and practitioners. It simplifies and streamlines work on deep learning models for healthcare and life sciences by offering tested components such as data loaders, pre-processing tools, deep learning models, and cloud integration utilities. The repository includes two Python packages, 'hi-ml-azure' for helper functions in AzureML, 'hi-ml' for ML components, and 'hi-ml-cpath' for models and workflows related to histopathology images.

This repository provides a fullstack example of building a Retrieval Augmented Generation (RAG) app with Cloudflare. It utilizes Cloudflare Workers, Pages, D1, KV, R2, AI Gateway, and Workers AI. The app features streaming interactions to the UI, hybrid RAG with Full-Text Search and Vector Search, switchable providers using AI Gateway, per-IP rate limiting with Cloudflare's KV, OCR within Cloudflare Worker, and Smart Placement for workload optimization. The development setup requires Node, pnpm, and wrangler CLI, along with setting up necessary primitives and API keys. Deployment involves setting up secrets and deploying the app to Cloudflare Pages. The project implements a Hybrid Search RAG approach combining Full Text Search against D1 and Hybrid Search with embeddings against Vectorize to enhance context for the LLM.

LangSim is a tool developed to address the challenge of using simulation tools in computational chemistry and materials science, which typically require cryptic input files or programming experience. The tool provides a Large Language Model (LLM) extension with agents to couple the LLM to scientific simulation codes and calculate physical properties from a natural language interface. It aims to simplify the process of interacting with simulation tools by enabling users to query the large language model directly from a Python environment or a web-based interface.

The Ersilia Model Hub is a unified platform of pre-trained AI/ML models dedicated to infectious and neglected disease research. It offers an open-source, low-code solution that provides seamless access to AI/ML models for drug discovery. Models housed in the hub come from two sources: published models from literature (with due third-party acknowledgment) and custom models developed by the Ersilia team or contributors.

NoLabs is an open-source biolab that provides easy access to state-of-the-art models for bio research. It supports various tasks, including drug discovery, protein analysis, and small molecule design. NoLabs aims to accelerate bio research by making inference models accessible to everyone.

OpenCRISPR is a set of free and open gene editing systems designed by Profluent Bio. The OpenCRISPR-1 protein maintains the prototypical architecture of a Type II Cas9 nuclease but is hundreds of mutations away from SpCas9 or any other known natural CRISPR-associated protein. You can view OpenCRISPR-1 as a drop-in replacement for many protocols that need a cas9-like protein with an NGG PAM and you can even use it with canonical SpCas9 gRNAs. OpenCRISPR-1 can be fused in a deactivated or nickase format for next generation gene editing techniques like base, prime, or epigenome editing.

The Ersilia Model Hub is a unified platform of pre-trained AI/ML models dedicated to infectious and neglected disease research. It offers an open-source, low-code solution that provides seamless access to AI/ML models for drug discovery. Models housed in the hub come from two sources: published models from literature (with due third-party acknowledgment) and custom models developed by the Ersilia team or contributors.

OntoGPT is a Python package for extracting structured information from text using large language models, instruction prompts, and ontology-based grounding. It provides a command line interface and a minimal web app for easy usage. The tool has been evaluated on test data and is used in related projects like TALISMAN for gene set analysis. OntoGPT enables users to extract information from text by specifying relevant terms and provides the extracted objects as output.

BIA `bob` is a Jupyter-based assistant for interacting with data using large language models to generate Python code. It can utilize OpenAI's chatGPT, Google's Gemini, Helmholtz' blablador, and Ollama. Users need respective accounts to access these services. Bob can assist in code generation, bug fixing, code documentation, GPU-acceleration, and offers a no-code custom Jupyter Kernel. It provides example notebooks for various tasks like bio-image analysis, model selection, and bug fixing. Installation is recommended via conda/mamba environment. Custom endpoints like blablador and ollama can be used. Google Cloud AI API integration is also supported. The tool is extensible for Python libraries to enhance Bob's functionality.

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.

Polaris establishes a novel, industry‑certified standard to foster the development of impactful methods in AI-based drug discovery. This library is a Python client to interact with the Polaris Hub. It allows you to download Polaris datasets and benchmarks, evaluate a custom method against a Polaris benchmark, and create and upload new datasets and benchmarks.

The 'awesome-AI4MolConformation-MD' repository focuses on protein conformations and molecular dynamics using generative artificial intelligence and deep learning. It provides resources, reviews, datasets, packages, and tools related to AI-driven molecular dynamics simulations. The repository covers a wide range of topics such as neural networks potentials, force fields, AI engines/frameworks, trajectory analysis, visualization tools, and various AI-based models for protein conformational sampling. It serves as a comprehensive guide for researchers and practitioners interested in leveraging AI for studying molecular structures and dynamics.