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.

NeMo Framework is a generative AI framework built for researchers and pytorch developers working on large language models (LLMs), multimodal models (MM), automatic speech recognition (ASR), and text-to-speech synthesis (TTS). The primary objective of NeMo is to provide a scalable framework for researchers and developers from industry and academia to more easily implement and design new generative AI models by being able to leverage existing code and pretrained models.

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.

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.

CISO Assistant is a tool that helps organizations manage their cybersecurity posture and compliance. It provides a centralized platform for managing security controls, threats, and risks. CISO Assistant also includes a library of pre-built frameworks and tools to help organizations quickly and easily implement best practices.

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.

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.

AgroTech AI platform is a comprehensive web-based tool where users can access various machine learning models for making accurate predictions related to agriculture. It offers solutions for crop management, soil health assessment, pest control, and more. The platform implements machine learning algorithms to provide functionalities like fertilizer prediction, crop prediction, soil quality prediction, yield prediction, and mushroom edibility prediction.

Robyn is an experimental, semi-automated and open-sourced Marketing Mix Modeling (MMM) package from Meta Marketing Science. It uses various machine learning techniques to define media channel efficiency and effectivity, explore adstock rates and saturation curves. Built for granular datasets with many independent variables, especially suitable for digital and direct response advertisers with rich data sources. Aiming to democratize MMM, make it accessible for advertisers of all sizes, and contribute to the measurement landscape.

LabelLLM is an open-source data annotation platform designed to optimize the data annotation process for LLM development. It offers flexible configuration, multimodal data support, comprehensive task management, and AI-assisted annotation. Users can access a suite of annotation tools, enjoy a user-friendly experience, and enhance efficiency. The platform allows real-time monitoring of annotation progress and quality control, ensuring data integrity and timeliness.

This repository contains a sophisticated deterministic graph-based solution for answering complex questions using a controllable autonomous agent. The solution is designed to ensure that answers are solely based on the provided data, avoiding hallucinations. It involves various steps such as PDF loading, text preprocessing, summarization, database creation, encoding, and utilizing large language models. The algorithm follows a detailed workflow involving planning, retrieval, answering, replanning, content distillation, and performance evaluation. Heuristics and techniques implemented focus on content encoding, anonymizing questions, task breakdown, content distillation, chain of thought answering, verification, and model performance evaluation.

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.

The ASReview project implements active learning for systematic reviews, utilizing AI-aided pipelines to assist in finding relevant texts for search tasks. It accelerates the screening of textual data with minimal human input, saving time and increasing output quality. The software offers three modes: Oracle for interactive screening, Exploration for teaching purposes, and Simulation for evaluating active learning models. ASReview LAB is designed to support decision-making in any discipline or industry by improving efficiency and transparency in screening large amounts of textual data.

BoCoEL is a tool that leverages Bayesian Optimization to efficiently evaluate large language models by selecting a subset of the corpus for evaluation. It encodes individual entries into embeddings, uses Bayesian optimization to select queries, retrieves from the corpus, and provides easily managed evaluations. The tool aims to reduce computation costs during evaluation with a dynamic budget, supporting models like GPT2, Pythia, and LLAMA through integration with Hugging Face transformers and datasets. BoCoEL offers a modular design and efficient representation of the corpus to enhance evaluation quality.

llm_client is a Rust interface designed for Local Large Language Models (LLMs) that offers automated build support for CPU, CUDA, MacOS, easy model presets, and a novel cascading prompt workflow for controlled generation. It provides a breadth of configuration options and API support for various OpenAI compatible APIs. The tool is primarily focused on deterministic signals from probabilistic LLM vibes, enabling specialized workflows for specific tasks and reproducible outcomes.

Kafka-ML is a framework designed to manage the pipeline of Tensorflow/Keras and PyTorch machine learning models on Kubernetes. It enables the design, training, and inference of ML models with datasets fed through Apache Kafka, connecting them directly to data streams like those from IoT devices. The Web UI allows easy definition of ML models without external libraries, catering to both experts and non-experts in ML/AI.

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.