Best AI tools for< Engineer Proteins >

The Institute for Protein Design is a research institute at the University of Washington that uses computational design to create new proteins that solve modern challenges in medicine, technology, and sustainability. The institute's research focuses on developing new protein therapeutics, vaccines, drug delivery systems, biological devices, self-assembling nanomaterials, and bioactive peptides. The institute also has a strong commitment to responsible AI development and has developed a set of principles to guide its use of AI in research.

Cradle is a protein engineering platform that uses machine learning to design improved protein sequences. It allows users to import assay data, generate new sequences, test them in the lab, and import the results to improve the model. Cradle can be used to optimize multiple properties of a protein simultaneously, and it has been used by leading biotech teams to accelerate new and ongoing projects.

Genesis Therapeutics is a cutting-edge platform that leverages molecular AI technology to discover and develop innovative medicines with exceptional potency and selectivity. The platform, known as GEMS (Generative AI for Drug Discovery), combines AI and physics research to identify drug candidates against challenging targets at an accelerated pace. The company's approach involves designing highly potent and selective drugs for chemically complex targets, driven by a team of collaborative minds across AI and biotech disciplines. Genesis Therapeutics is dedicated to advancing breakthrough medicines and bringing new hope to patients through its unique blend of technology and expertise.

Google DeepMind is an AI research company that aims to develop artificial intelligence technologies to benefit the world. They focus on creating next-generation AI systems to solve complex scientific and engineering challenges. Their models like Gemini, Veo, Imagen 3, SynthID, and AlphaFold are at the forefront of AI innovation. DeepMind also emphasizes responsibility, safety, education, and career opportunities in the field of AI.

Google DeepMind is an AI research lab that aims to build AI responsibly to benefit humanity. They work on complex challenges in AI, focusing on breakthroughs and innovations. The lab develops various AI models and agents, such as Gemini, Project Astra, Imagen, Veo, AlphaFold, and SynthID. Google DeepMind emphasizes responsibility, safety, education, and career development in the AI field. They also share their research through publications, events, and podcasts, showcasing how AI is transforming the world.

HUAWEI Cloud Pangu is an AI tool designed for accelerating drug discovery by optimizing drug molecules. It offers features such as Molecule Search, Molecule Optimizer, and Pocket Molecule Design. Users can submit molecules for optimization and view historical optimization results. The tool is based on the MindSpore framework and has been visited over 300,000 times since August 23, 2021.

GPT Engineer is an AI tool designed to help users build web applications 10x faster by chatting with AI. Users can sync their projects with GitHub and deploy them with a single click. The tool offers features like displaying top stories from Hacker News, creating landing pages for startups, tracking crypto portfolios, managing startup operations, and building front-end with React, Tailwind & Vite. GPT Engineer is currently in beta and aims to streamline the web development process for users.

prompter.engineer is a domain that is currently parked for free, courtesy of GoDaddy.com. The website does not provide any specific content or services at the moment, as it is not associated with any particular company, product, or service. It primarily serves as a placeholder domain registered with GoDaddy, LLC, and does not imply any endorsement or association with third-party advertisers.

The Software Engineer Interview Questions Generator is an AI tool that helps software engineers prepare for interviews by generating a wide range of technical questions based on various programming languages, frameworks, and technologies. Users can select specific topics and the number of questions they want to generate, making it a valuable resource for interview preparation. The tool leverages AI technology to provide relevant and challenging questions that cover a diverse set of topics commonly encountered in software engineering interviews.

CV Engineer is an AI-powered tool designed to help individuals tailor their CVs for each job posting. It uses artificial intelligence to customize CVs based on the specific requirements of the job, ensuring that key skills and keywords are highlighted. The tool streamlines the process of creating tailored CVs, saving time and increasing the chances of getting noticed by hiring managers. With features like GPT-4o Intelligence, Skill Highlighting, Automated Research, Translate to HR, and Edit in Overleaf, CV Engineer offers a comprehensive solution for optimizing CVs for job applications.

16x Prompt is a desktop application that helps developers compose prompts for coding tasks in ChatGPT. It simplifies prompt creation by adding context, source code, and formatting instructions. The app supports all major programming languages and frameworks, and it can be used to generate prompts for a variety of coding tasks, including coding from scratch, debugging, refactoring, and more. 16x Prompt is free to download and use, and it can be used with both ChatGPT and GPT-4.

Interview Igniter is an AI-powered platform that provides job seekers with a robust interview simulation to fine-tune their skills, adapt to their learning curve, and get detailed feedback. It offers a comprehensive question bank, including industry-specific questions and actual interview questions asked by leading tech companies like Google, Facebook, Apple, and Amazon. Interview Igniter also provides a coding interview tool for practicing and improving coding skills, with interactive guidance and tailored learning experiences. The platform utilizes Conversation Intelligence tools for analyzing communication in real-time and providing nuanced feedback. Interview Igniter was created by Vidal Graupera, a former engineering manager at LinkedIn and Uber with over 20 years of experience hiring.

VIDOC is an AI-powered security engineer that automates code review and penetration testing. It continuously scans and reviews code to detect and fix security issues, helping developers deliver secure software faster. VIDOC is easy to use, requiring only two lines of code to be added to a GitHub Actions workflow. It then takes care of the rest, providing developers with a tailored code solution to fix any issues found.

Pixeebot is an automated product security engineer that helps developers fix vulnerabilities, harden code, squash bugs, and improve code quality. It integrates with your existing workflow and can be used locally via CLI or through the GitHub app. Pixeebot is powered by the open source Codemodder framework, which allows you to build your own custom codemods.

Engine is an AI software engineer tool designed to help teams ship faster by connecting to various tools and building autonomously 24/7. It can complete up to 50% of tickets in minutes with no supervision, reducing backlog and workload. Engine works with established workflows, such as GitHub, Jira, Trello, Linear, and Slack, to pair program in a full-featured IDE and tackle complex problems. It allows software engineers to focus on important tasks while leaving repetitive chores to the AI.

Devin AI, developed by Cognition Labs, is the world's first fully autonomous AI software engineer. It streamlines software development by handling complex tasks, allowing engineers to focus on more challenging aspects. Devin AI possesses advanced programming skills, can manage complex tasks, understands and learns contextually, integrates with developer tools, and offers collaborative features. It can build and deploy applications, detect and fix bugs, contribute to open-source projects, train AI models, and handle GitHub repositories. Devin AI has demonstrated strong performance in issue resolution, surpassing previous AI models. It is currently in early access, with plans for future enhancements and integration with various development tools and platforms.

Auphonic is an AI-powered audio post-production web tool designed to help users achieve professional-quality audio results effortlessly. It offers a range of features such as Intelligent Leveler, Noise & Reverb Reduction, Filtering & AutoEQ, Cut Filler Words and Silence, Multitrack Algorithms, Loudness Specifications, Speech2Text & Automatic Shownotes, Video Support, Metadata & Chapters, and more. Auphonic is widely used by podcasters, educators, content creators, and audiobook producers to enhance their audio content and streamline their workflows. With its intuitive interface and advanced algorithms, Auphonic simplifies the audio editing process and ensures consistent audio quality across different platforms.

BugFree.ai is an AI-powered platform designed to help users practice system design and behavior interviews, similar to Leetcode. The platform offers a range of features to assist users in preparing for technical interviews, including mock interviews, real-time feedback, and personalized study plans. With BugFree.ai, users can improve their problem-solving skills and gain confidence in tackling complex interview questions.

Interview.study is an AI-powered interview preparation platform that helps candidates practice real interview questions asked by top companies. The platform provides users with instant feedback on their responses, helping them identify areas for improvement and develop stronger answers. Interview.study also offers a variety of features to help candidates prepare for their interviews, including a database of interview questions, a mock interview tool, and a resume builder.

Developer Roadmaps (roadmap.sh) is a community-driven platform offering official roadmaps, guides, projects, best practices, questions, and videos to assist developers in skill development and career growth. It provides role-based and skill-based roadmaps covering various technologies and domains. The platform is actively maintained and continuously updated to enhance the learning experience for developers worldwide.

The 'machine-learning-research' repository is a comprehensive collection of resources related to mathematics, machine learning, deep learning, artificial intelligence, data science, and various scientific fields. It includes materials such as courses, tutorials, books, podcasts, communities, online courses, papers, and dissertations. The repository covers topics ranging from fundamental math skills to advanced machine learning concepts, with a focus on applications in healthcare, genetics, computational biology, precision health, and AI in science. It serves as a valuable resource for individuals interested in learning and researching in the fields of machine learning and related disciplines.

Awesome Generative AI is a curated list of modern Generative Artificial Intelligence projects and services. Generative AI technology creates original content like images, sounds, and texts using machine learning algorithms trained on large data sets. It can produce unique and realistic outputs such as photorealistic images, digital art, music, and writing. The repo covers a wide range of applications in art, entertainment, marketing, academia, and computer science.

The 'llms-tools' repository is a comprehensive collection of AI tools, open-source projects, and research related to Large Language Models (LLMs) and Chatbots. It covers a wide range of topics such as AI in various domains, open-source models, chats & assistants, visual language models, evaluation tools, libraries, devices, income models, text-to-image, computer vision, audio & speech, code & math, games, robotics, typography, bio & med, military, climate, finance, and presentation. The repository provides valuable resources for researchers, developers, and enthusiasts interested in exploring the capabilities of LLMs and related technologies.

Awesome OpenVINO is a curated list of AI projects based on the OpenVINO toolkit, offering a rich assortment of projects, libraries, and tutorials covering various topics like model optimization, deployment, and real-world applications across industries. It serves as a valuable resource continuously updated to maximize the potential of OpenVINO in projects, featuring projects like Stable Diffusion web UI, Visioncom, FastSD CPU, OpenVINO AI Plugins for GIMP, and more.

LlamaBot is a Pythonic bot interface to Large Language Models (LLMs), providing an easy way to experiment with LLMs in Jupyter notebooks and build Python apps utilizing LLMs. It supports all models available in LiteLLM. Users can access LLMs either through local models with Ollama or by using API providers like OpenAI and Mistral. LlamaBot offers different bot interfaces like SimpleBot, ChatBot, QueryBot, and ImageBot for various tasks such as rephrasing text, maintaining chat history, querying documents, and generating images. The tool also includes CLI demos showcasing its capabilities and supports contributions for new features and bug reports from the community.

Awesome AI Tools is a curated list of popular tools and resources for artificial intelligence enthusiasts. It includes a wide range of tools such as machine learning libraries, deep learning frameworks, data visualization tools, and natural language processing resources. Whether you are a beginner or an experienced AI practitioner, this repository aims to provide you with a comprehensive collection of tools to enhance your AI projects and research. Explore the list to discover new tools, stay updated with the latest advancements in AI technology, and find the right resources to support your AI endeavors.

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.

AI2BMD is a program for efficiently simulating protein molecular dynamics with ab initio accuracy. The repository contains datasets, simulation programs, and public materials related to AI2BMD. It provides a Docker image for easy deployment and a standalone launcher program. Users can run simulations by downloading the launcher script and specifying simulation parameters. The repository also includes ready-to-use protein structures for testing. AI2BMD is designed for x86-64 GNU/Linux systems with recommended hardware specifications. The related research includes model architectures like ViSNet, Geoformer, and fine-grained force metrics for MLFF. Citation information and contact details for the AI2BMD Team are provided.

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.

This repository includes papers and blogs about Efficient Transformers, Length Extrapolation, Long Term Memory, Retrieval Augmented Generation(RAG), and Evaluation for Long Context Modeling.

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.

PaperQA is a minimal package for question and answering from PDFs or text files, providing very good answers with in-text citations. It uses OpenAI Embeddings to embed and search documents, and includes a process of embedding docs, queries, searching for top passages, creating summaries, using an LLM to re-score and select relevant summaries, putting summaries into prompt, and generating answers. The tool can be used to answer specific questions related to scientific research by leveraging citations and relevant passages from documents.

A public repository collecting links to state-of-the-art training sets, QA, benchmarks and other evaluations for various ML and LLM applications in materials science and chemistry. It includes datasets related to chemistry, materials, multimodal data, and knowledge graphs in the field. The repository aims to provide resources for training and evaluating machine learning models in the materials science and chemistry domains.

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.

ProLLM is a framework that leverages Large Language Models to interpret and analyze protein sequences and interactions through natural language processing. It introduces the Protein Chain of Thought (ProCoT) method to transform complex protein interaction data into intuitive prompts, enhancing predictive accuracy by incorporating protein-specific embeddings and fine-tuning on domain-specific datasets.

AIRS is a collection of open-source software tools, datasets, and benchmarks focused on Artificial Intelligence for Science in Quantum, Atomistic, and Continuum Systems. The goal is to develop and maintain an integrated, open, reproducible, and sustainable set of resources to advance the field of AI for Science. The current resources include tools for Quantum Mechanics, Density Functional Theory, Small Molecules, Protein Science, Materials Science, Molecular Interactions, and Partial Differential Equations.

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 collection is actively updated with the help of an internal literature search engine.

Bittensor is an internet-scale neural network that incentivizes computers to provide access to machine learning models in a decentralized and censorship-resistant manner. It operates through a token-based mechanism where miners host, train, and procure machine learning systems to fulfill verification problems defined by validators. The network rewards miners and validators for their contributions, ensuring continuous improvement in knowledge output. Bittensor allows anyone to participate, extract value, and govern the network without centralized control. It supports tasks such as generating text, audio, images, and extracting numerical representations.

AI protein design assistant

Assists in evaluating protein engineering tools.

A customized ChatGPT designed to excel in the field of synthetic biology, as a scientist, an engineer, and a business man

your cognitive architect for GPT bot creation

An expert Python engineer to help you solve and debug problems together.

An expert Swift engineer to help you solve and debug problems together.

An expert in video from classic to future neural network compression

An expert Ruby engineer to help you solve and debug problems together.

Analyze and reverse engineer images. Receive style descriptions and image re-creation prompts.

An expert TypeScript engineer to help you solve and debug problems together.

a snarky code wizard that roasts and improves your programming

Tech-savvy manager for computer-based problem-solving.

I create custom avatars from initials.

Sofware Engineer Copilot. Skilled Sofware Engineer Assistant for software development support. @JacquesGariepy

Provides expert help for Laravel development questions and challenges.

An expert Kotlin engineer to help you solve and debug problems together.

ML Engineer who codes & researches for you! created by Meysam

An expert C# engineer to help you solve and debug problems together.

An expert PHP engineer to help you solve and debug problems together.

Gives structure to messy GitHub issues.