Best AI tools for< Biologist >

Valo is a company that uses AI-driven technology to transform the discovery and development of life-changing medicines. They combine machine learning, tissue biology, and patient data to create a suite of powerful capabilities that bring the future of drug discovery and development to bear. Valo's team of software engineers, data scientists, biologists, medicinal chemists, and big-picture thinkers are dedicated to advancing the combined power of technology and patient data.

Atomwise is an artificial intelligence (AI)-driven drug discovery company that uses machine learning to discover and develop new small molecule medicines. The company's AI engine combines the power of convolutional neural networks with massive chemical libraries to identify new drug candidates. Atomwise has a wholly owned pipeline of drug discovery programs and also partners with other pharmaceutical companies to co-develop drugs. The company's investors include prominent venture capital firms and pharmaceutical companies.

Deepcell is a company that develops technology for single-cell analysis. Their REM-I platform combines label-free imaging, deep learning, and gentle sorting to leverage single cell morphology as a high-dimensional quantitative readout. This allows researchers to gain insights into cells' phenotype and function to address important research questions across biology.

Recursion is a techbio company that uses artificial intelligence to accelerate drug discovery. The company's platform combines hardware, software, and data to create a more efficient and effective drug discovery process. Recursion has a broad pipeline of drug candidates in development, and it has partnered with several leading pharmaceutical companies. The company is headquartered in Salt Lake City, Utah.

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.

Allchemy is a resource-aware AI platform for drug discovery. It combines state-of-the-art computational synthesis with AI algorithms to predict molecular properties. Within minutes, Allchemy creates thousands of synthesizable lead candidates meeting user-defined profiles of drug-likeness, affinity towards specific proteins, toxicity, and a range of other physical-chemical measures. Allchemy encompasses the entire resource-to-drug design process and has been used in academic, corporate and classified environments worldwide to: Design synthesizable leads targeting specific proteins Evolve scaffolds similar to desired drugs Design “circular” drug syntheses from renewable materials Interface with and instruct automated synthesis platforms and optimize pilot-scale processes Operate “iterative synthesis” schemes Predict side reactions and create forensic “synthetic signatures” of hazardous/toxic molecules Design synthetic degradation and recovery cycles for various types of feedstocks and functional target molecules

Atomwise is an AI-powered drug discovery company that uses machine learning to identify new small molecule medicines. The company's platform combines the power of convolutional neural networks with massive chemical libraries to discover new drug candidates. Atomwise has a portfolio of wholly owned and co-developed pipeline assets, and is backed by prominent investors.

Wildlife Insights is an AI application that brings cutting-edge technology to wildlife conservation. It streamlines decision-making by providing machine learning models and tools to manage, analyze, and share camera trap data. Users can easily upload, identify, analyze, and discover wildlife through the platform, enabling better decisions to help wildlife thrive globally.

BioloGPT is an AI tool designed to answer biology-related questions with insights and graphs. It provides information on various topics such as maintaining a healthy gut microbiome, foods for a healthy immune system, effects of cannabis on the brain, risks of Covid-19 vaccines, and advancements in psoriasis treatment. The tool is updated daily and cites full papers to support its answers.

Bichos ID de Fucesa is an AI tool that allows users to explore and identify insects, arachnids, and other arthropods using artificial intelligence. Users can discover the most searched bugs, explore new discoveries made by the community, and view curated organisms. The platform aims to expand knowledge about the fascinating world of arthropods through AI-powered identification.

HoloEye.AI is a transformative AI biological intelligence company that leverages cutting-edge artificial intelligence technology to revolutionize the field of biological research. The platform offers advanced AI solutions for analyzing complex biological data, enabling researchers to gain deeper insights and accelerate scientific discoveries.

MegaDetector is an AI model that identifies animals, people, and vehicles in camera trap images (which also makes it useful for eliminating blank images). This model is trained on several million images from a variety of ecosystems. MegaDetector is just one of many tools that aims to make conservation biologists more efficient with AI. If you want to learn about other ways to use AI to accelerate camera trap workflows, check out our of the field, affectionately titled "Everything I know about machine learning and camera traps".

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.

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.

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.

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.

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.

SciML.ai is an open source software organization dedicated to unifying packages for scientific machine learning. It focuses on developing modular scientific simulation support software, including differential equation solvers, inverse problems methodologies, and automated model discovery. The organization aims to provide a diverse set of tools with a common interface, creating a modular, easily-extendable, and highly performant ecosystem for scientific simulations. The website serves as a platform to showcase SciML organization's packages and share news within the ecosystem. Pull requests are encouraged for contributions.

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.

AITom is an open-source platform for AI-driven cellular electron cryo-tomography analysis. It is developed to process large amounts of Cryo-ET data, reconstruct, detect, classify, recover, and spatially model different cellular components using state-of-the-art machine learning approaches. The platform aims to automate cellular structure discovery and provide new insights into molecular biology and medical applications.

AIKA (Artificial Intelligence for Knowledge Acquisition) is a new type of artificial neural network designed to mimic the behavior of a biological brain more closely and bridge the gap to classical AI. The network conceptually separates activations from neurons, creating two separate graphs to represent acquired knowledge and inferred information. It uses different types of neurons and synapses to propagate activation values, binding signals, causal relations, and training gradients. The network structure allows for flexible topology and supports the gradual population of neurons and synapses during training.

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.

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.

PsyDI is a multi-modal and interactive chatbot designed for psychological assessments. It aims to explore users' cognitive styles through interactive analysis of their inputs, ultimately determining their Myers-Briggs Type Indicator (MBTI). The chatbot offers customized feedback and detailed analysis for each user, with upcoming features such as an MBTI gallery. Users can access PsyDI directly online to begin their journey of self-discovery.

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.

The Everything-LLMs-And-Robotics repository is the world's largest GitHub repository focusing on the intersection of Large Language Models (LLMs) and Robotics. It provides educational resources, research papers, project demos, and Twitter threads related to LLMs, Robotics, and their combination. The repository covers topics such as reasoning, planning, manipulation, instructions and navigation, simulation frameworks, perception, and more, showcasing the latest advancements in the field.

AIDE is a machine learning code generation agent that can generate solutions for machine learning tasks from natural language descriptions. It has the following features: 1. **Instruct with Natural Language**: Describe your problem or additional requirements and expert insights, all in natural language. 2. **Deliver Solution in Source Code**: AIDE will generate Python scripts for the **tested** machine learning pipeline. Enjoy full transparency, reproducibility, and the freedom to further improve the source code! 3. **Iterative Optimization**: AIDE iteratively runs, debugs, evaluates, and improves the ML code, all by itself. 4. **Visualization**: We also provide tools to visualize the solution tree produced by AIDE for a better understanding of its experimentation process. This gives you insights not only about what works but also what doesn't. AIDE has been benchmarked on over 60 Kaggle data science competitions and has demonstrated impressive performance, surpassing 50% of Kaggle participants on average. It is particularly well-suited for tasks that require complex data preprocessing, feature engineering, and model selection.

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.

Awesome-Segment-Anything is a powerful tool for segmenting and extracting information from various types of data. It provides a user-friendly interface to easily define segmentation rules and apply them to text, images, and other data formats. The tool supports both supervised and unsupervised segmentation methods, allowing users to customize the segmentation process based on their specific needs. With its versatile functionality and intuitive design, Awesome-Segment-Anything is ideal for data analysts, researchers, content creators, and anyone looking to efficiently extract valuable insights from complex datasets.

I improve objects with animals.

Echoes Watson & Crick, educates on DNA with depth.

Assists with biological image processing tools.

Aging biology expert blending baseline knowledge with user literature

Expert in cancer biology

Biomimicry as a way of life.

Explore Professor Oak's garden of rare, unknown creatures from his own vast knowledge.

Aids in biological science writing with concise, professional advice.

Nature’s Greatest Hits from a 3.9-Billion-Year-Old Lab

The OG Biologist at your service

CRISPR GPT Tutor by Ascendance.dev

I explain species' life cycles with photorealistic images.

A seasoned neuroscientist and biologist who is known for being authentic, upfront, and sometimes unhinged. Happens to have API access to PsychonautWiki.

Expert in automation engineering, generating Python code for Opentrons SDK.

Identifies fungi in images, provides details and edibility info.

Especialista em Biologia Geral com dados da CAPES.

Professional terpene educator using analogies.

Expert on 'The Miles Paper', focusing on specimen anatomy.

Discusses types of parasites and their characteristics.

A biology expert, informative and scientifically accurate.

The 'Jurassic Park' Book Expert

The lil brother of CF+ altering genomes without a license (not for the faint of heart)