DNAnalyzer is a nonprofit organization dedicated to revolutionizing DNA analysis through AI-powered tools. It aims to democratize access to DNA analysis for a deeper understanding of human health and disease. The tool provides innovative AI-powered analysis and interpretive tools to empower geneticists, physicians, and researchers to gain deep insights into DNA sequences, revolutionizing how we understand human health and disease.

Merlin is a groundbreaking model capable of generating natural language responses intricately linked with object trajectories of multiple images. It excels in predicting and reasoning about future events based on initial observations, showcasing unprecedented capability in future prediction and reasoning. Merlin achieves state-of-the-art performance on the Future Reasoning Benchmark and multiple existing multimodal language models benchmarks, demonstrating powerful multi-modal general ability and foresight minds.

GrAIdient is a framework designed to enable the development of deep learning models using the internal GPU of a Mac. It provides access to the graph of layers, allowing for unique model design with greater understanding, control, and reproducibility. The goal is to challenge the understanding of deep learning models, transitioning from black box to white box models. Key features include direct access to layers, native Mac GPU support, Swift language implementation, gradient checking, PyTorch interoperability, and more. The documentation covers main concepts, architecture, and examples. GrAIdient is MIT licensed.

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.

Data-to-paper is an AI-driven framework designed to guide users through the process of conducting end-to-end scientific research, starting from raw data to the creation of comprehensive and human-verifiable research papers. The framework leverages a combination of LLM and rule-based agents to assist in tasks such as hypothesis generation, literature search, data analysis, result interpretation, and paper writing. It aims to accelerate research while maintaining key scientific values like transparency, traceability, and verifiability. The framework is field-agnostic, supports both open-goal and fixed-goal research, creates data-chained manuscripts, involves human-in-the-loop interaction, and allows for transparent replay of the research process.

CSGHub is an open source, trustworthy large model asset management platform that can assist users in governing the assets involved in the lifecycle of LLM and LLM applications (datasets, model files, codes, etc). With CSGHub, users can perform operations on LLM assets, including uploading, downloading, storing, verifying, and distributing, through Web interface, Git command line, or natural language Chatbot. Meanwhile, the platform provides microservice submodules and standardized OpenAPIs, which could be easily integrated with users' own systems. CSGHub is committed to bringing users an asset management platform that is natively designed for large models and can be deployed On-Premise for fully offline operation. CSGHub offers functionalities similar to a privatized Huggingface(on-premise Huggingface), managing LLM assets in a manner akin to how OpenStack Glance manages virtual machine images, Harbor manages container images, and Sonatype Nexus manages artifacts.

Nucleoid is a declarative (logic) runtime environment that manages both data and logic under the same runtime. It uses a declarative programming paradigm, which allows developers to focus on the business logic of the application, while the runtime manages the technical details. This allows for faster development and reduces the amount of code that needs to be written. Additionally, the sharding feature can help to distribute the load across multiple instances, which can further improve the performance of the system.

db-ally is a library for creating natural language interfaces to data sources. It allows developers to outline specific use cases for a large language model (LLM) to handle, detailing the desired data format and the possible operations to fetch this data. db-ally effectively shields the complexity of the underlying data source from the model, presenting only the essential information needed for solving the specific use cases. Instead of generating arbitrary SQL, the model is asked to generate responses in a simplified query language.

SwiftSage is a tool designed for conducting experiments in the field of machine learning and artificial intelligence. It provides a platform for researchers and developers to implement and test various algorithms and models. The tool is particularly useful for exploring new ideas and conducting experiments in a controlled environment. SwiftSage aims to streamline the process of developing and testing machine learning models, making it easier for users to iterate on their ideas and achieve better results. With its user-friendly interface and powerful features, SwiftSage is a valuable tool for anyone working in the field of AI and ML.

LLMOps with Prompt flow is a template and guidance for building LLM-infused apps using Prompt flow. It provides centralized code hosting, lifecycle management, variant and hyperparameter experimentation, A/B deployment, many-to-many dataset/flow relationships, multiple deployment targets, comprehensive reporting, BYOF capabilities, configuration-based development, local prompt experimentation and evaluation, endpoint testing, and optional Human-in-loop validation. The tool is customizable to suit various application needs.

SuperSonic is a next-generation BI platform that integrates Chat BI (powered by LLM) and Headless BI (powered by semantic layer) paradigms. This integration ensures that Chat BI has access to the same curated and governed semantic data models as traditional BI. Furthermore, the implementation of both paradigms benefits from the integration: * Chat BI's Text2SQL gets augmented with context-retrieval from semantic models. * Headless BI's query interface gets extended with natural language API. SuperSonic provides a Chat BI interface that empowers users to query data using natural language and visualize the results with suitable charts. To enable such experience, the only thing necessary is to build logical semantic models (definition of metric/dimension/tag, along with their meaning and relationships) through a Headless BI interface. Meanwhile, SuperSonic is designed to be extensible and composable, allowing custom implementations to be added and configured with Java SPI. The integration of Chat BI and Headless BI has the potential to enhance the Text2SQL generation in two dimensions: 1. Incorporate data semantics (such as business terms, column values, etc.) into the prompt, enabling LLM to better understand the semantics and reduce hallucination. 2. Offload the generation of advanced SQL syntax (such as join, formula, etc.) from LLM to the semantic layer to reduce complexity. With these ideas in mind, we develop SuperSonic as a practical reference implementation and use it to power our real-world products. Additionally, to facilitate further development we decide to open source SuperSonic as an extensible framework.

Parrot is a distributed serving system for LLM-based Applications, designed to efficiently serve LLM-based applications by adding Semantic Variable in the OpenAI-style API. It allows for horizontal scalability with multiple Engine instances running LLM models communicating with ServeCore. The system enables AI agents to interact with LLMs via natural language prompts for collaborative tasks.

ChatGPT is a large language model that can generate human-like text, translate languages, write different kinds of creative content, and answer your questions in a conversational way. It is trained on a massive amount of text data, and it is able to understand and respond to a wide range of natural language prompts. Here are 5 jobs suitable for this tool, in lowercase letters: 1. content writer 2. chatbot assistant 3. language translator 4. creative writer 5. researcher

DevOpsGPT is an AI-driven software development automation solution that combines Large Language Models (LLM) with DevOps tools to convert natural language requirements into working software. It improves development efficiency by eliminating the need for tedious requirement documentation, shortens development cycles, reduces communication costs, and ensures high-quality deliverables. The Enterprise Edition offers features like existing project analysis, professional model selection, and support for more DevOps platforms. The tool automates requirement development, generates interface documentation, provides pseudocode based on existing projects, facilitates code refinement, enables continuous integration, and supports software version release. Users can run DevOpsGPT with source code or Docker, and the tool comes with limitations in precise documentation generation and understanding existing project code. The product roadmap includes accurate requirement decomposition, rapid import of development requirements, and integration of more software engineering and professional tools for efficient software development tasks under AI planning and execution.

KDB.AI is a time-based vector database that allows developers to build scalable, reliable, and real-time applications by providing advanced search, recommendation, and personalization for Generative AI applications. It supports multiple index types, distance metrics, top-N and metadata filtered retrieval, as well as Python and REST interfaces. The repository contains samples demonstrating various use-cases such as temporal similarity search, document search, image search, recommendation systems, sentiment analysis, and more. KDB.AI integrates with platforms like ChatGPT, Langchain, and LlamaIndex. The setup steps require Unix terminal, Python 3.8+, and pip installed. Users can install necessary Python packages and run Jupyter notebooks to interact with the samples.

DNAnalyzer is a nonprofit organization dedicated to revolutionizing DNA analysis through AI-powered tools. It aims to democratize access to DNA analysis for a deeper understanding of human health and disease. The tool provides innovative AI-powered analysis and interpretive tools to empower geneticists, physicians, and researchers to gain deep insights into DNA sequences, revolutionizing how we understand human health and disease.

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.