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    H-optimus-1

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    Sold by: Bioptimus 
    Deployed on AWS
    A state-of-the-art foundation model for histopathology image analysis. The model is a 1.1B parameter vision transformer trained with self-supervised learning on an extensive proprietary dataset of billions of histology images sampled from over 1 million slides of more than 800,000 patients.

    Overview

    H optimus 1 (H1) is a state of the art foundation model for computational pathology that turns H&E whole-slide images (WSIs) into high fidelity, task agnostic embeddings, boosting the performance of downstream models in routine and advanced histology workflows, including diagnostics, patient stratification, and prediction of clinical outcomes.

    H1 embeddings preserve both cellular detail and tissue level context, making them useful for downstream classifiers and survival models, or as a universal feature backbone in your own pipelines. H1 delivers strong slide level and tile level performance, as well as enhancements to routine analysis like cell counting, typing, and segmentation.

    H1 provides scalable, secure embedding generation and model assisted inference that can be integrated into discovery, translational, and clinical research pipelines with enterprise governance. H1 can extract powerful features from histology images for various downstream applications, such as mutation prediction, survival analysis, or tissue classification.

    In comparative studies, H1's performance was shown to be superior or highly competitive against other leading pathology foundation models, including UNI2, Virchow2, and Prov GigaPath. Its strong zero shot and few shot learning capabilities underscore the quality of its learned feature representations, allowing it to achieve high accuracy on new tasks with minimal task specific fine tuning. This makes it a powerful and efficient tool for accelerating research and discovery in computational pathology.

    Highlights

    • H-optimus-1 is a Vision Transformer (ViT) model with 1.1 billion parameters. The ViT architecture processes images by dividing them into a sequence of fixed-size patches, which are then linearly embedded and fed into a standard Transformer encoder. This approach allows the model to capture complex, long-range dependencies across the entire image, making it exceptionally well-suited for the high-resolution and intricate patterns found in digital pathology slides.
    • The model was pre-trained on a vast, proprietary dataset of histology imagery, curated to ensure unprecedented scale and diversity, containing billions of image patches sampled from over one million H&E-stained slides. The data represents more than 800,000 unique patients from over 4,000 clinical centers, providing a broad and varied foundation for the model to learn from. The dataset covers over 50 different organ systems, encompassing a wide spectrum of both healthy and diseased tissues.
    • H-optimus-1 has been rigorously evaluated and has demonstrated state-of-the-art (SOTA) performance across 13 distinct downstream tasks on 15 public and private datasets [H1 Benchmarks](https://www.bioptimus.com/news/bioptimus-launches-h-optimus-1), including the comprehensive HEST benchmark [HEST benchmark ](https://github.com/mahmoodlab/HEST?tab=readme-ov-file) as of 02/27/2024.

    Details

    Delivery method

    Latest version

    Deployed on AWS

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    Usage costs (3)

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    Dimension
    Description
    Cost
    ml.g5.xlarge Inference (Batch)
    Recommended
    Model inference on the ml.g5.xlarge instance type, batch mode
    $600.00/host/hour
    ml.p3.2xlarge Inference (Batch)
    Model inference on the ml.p3.2xlarge instance type, batch mode
    $600.00/host/hour
    inference.count.m.i.c Inference Pricing
    inference.count.m.i.c Inference Pricing
    $0.002/request

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    Usage information

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    Delivery details

    Amazon SageMaker model

    An Amazon SageMaker model package is a pre-trained machine learning model ready to use without additional training. Use the model package to create a model on Amazon SageMaker for real-time inference or batch processing. Amazon SageMaker is a fully managed platform for building, training, and deploying machine learning models at scale.

    Deploy the model on Amazon SageMaker AI using the following options:
    Deploy the model as an API endpoint for your applications. When you send data to the endpoint, SageMaker processes it and returns results by API response. The endpoint runs continuously until you delete it. You're billed for software and SageMaker infrastructure costs while the endpoint runs. AWS Marketplace models don't support Amazon SageMaker Asynchronous Inference. For more information, see Deploy models for real-time inference  .
    Deploy the model to process batches of data stored in Amazon Simple Storage Service (Amazon S3). SageMaker runs the job, processes your data, and returns results to Amazon S3. When complete, SageMaker stops the model. You're billed for software and SageMaker infrastructure costs only during the batch job. Duration depends on your model, instance type, and dataset size. AWS Marketplace models don't support Amazon SageMaker Asynchronous Inference. For more information, see Batch transform for inference with Amazon SageMaker AI  .
    Version release notes

    Initial version

    Additional details

    Inputs

    Summary

    H-optimus-1 expects as input 224x224 pixels histology tile images of 0.5 microns per pixel resolution.

    Limitations for input type
    H-optimus-1 is expected to perform less well on images at other resolutions (e.g. 0.25 or 1.0 MPP).
    Input MIME type
    image/*, application/x-image
    https://github.com/bioptimus/h1-jumpstart/blob/main/data/input/real-time/example_input.png
    https://github.com/bioptimus/h1-jumpstart/tree/main/data/input/batch

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