Promoting Discovery Through Collaboration

Collaborative image management for pathology

Collaborative Workspace for Pathology Images, Analysis, and Data

HALO Link is a browser-based hub for pathology that helps research organizations worldwide to safely and securely manage, share, and analyze digital slides and data. Offering limitless data organization with robust search capabilities, seamless collaboration, and flexible options for image analysis and custom integrations, HALO Link is a pathology workspace without bounds.


All Your Data, Within Reach

Streamline your workflows and boost productivity by seamlessly incorporating images, metadata, and image analysis. Quickly find and leverage all your data with a flexible study-based architecture, advanced search and filter tools, and customizable and collaborative workflows.

Collaboration Without Limits

Collaborate with colleagues anytime, anywhere with the easy-to-use invitation system in HALO Link. Users can be organized by group and invited simultaneously to studies or personal slide trays for collaboration on shared image markups and analysis results.

Ensure data security and integrity with role-based access permissions. Complement your existing Good Laboratory Practices SOPs with auditing and reason for change capture through the Compliance Add-On. Contact us today to discuss how the Compliance Add-On can complement your existing SOPs to aid Good Laboratory Practices.

Ready for AI-Powered Image Analysis

HALO Link users can leverage industry leading image analysis from HALO® and HALO AI. Annotations and analysis results are fully connected between HALO Link and HALO thanks to a shared database. Apply any saved analysis settings or classifiers and visualize results within HALO Link on both brightfield and fluorescence images.

Brightfield Image Analysis

Fluorescence Image Analysis

Deep Learning-Based Classifiers

Prefer a third-party image analysis solution? Ask us how you can leverage the application programming interface (API) of HALO Link to integrate the image analysis tools of your choice.

Flexible Integration and Deployment Options

HALO Link enables you to build the digital pathology ecosystem that fits your needs. HALO Link is compatible with files from all major scanners, and its powerful API enables integration with LIS | LIMS systems, compatible third-party image analysis platforms, including from Visiopharm®, and other third-party databases. Need a custom integration? Our teams have extensive experience in integration development.

HALO Link can be deployed on premise or in the cloud, and our technical and Cloud Services teams will support your IT department with all aspects of deployment.

Time-Saving Automation

Stay up-to-date with newly scanned slides and increase your productivity with the automation capabilities of HALO Link. Users can have new images and data automatically added from slide scanners as soon as they are acquired or pull from third-party databases. Automated information parsing from 1D and 2D barcodes means less time spent on data entry.

Features of the HALO Link Collaborative Image Management Platform

HALO Link features a powerful and intuitive browser-based image viewer. Change magnification, toggle and adjust fluorescent channels, and easily pan through images using Ergo mode. Deploy a robust collection of annotation tools, including flood-fill and undo-redo, to efficiently annotate tissues, and take high-resolution snapshots for sharing or publication.

Organize without limits thanks to the study-focused design and flexible data hierarchies of HALO Link. Just a few clicks are needed to move slides between studies or relocate an entire study to a different level. Leverage custom study and slide fields at every level for easy task tracking and metadata organization.

Get a deeper understanding of your results, quicker, with interactive markups that allow you to toggle the visibility of cell populations of interest.

Construct slide trays to temporarily host slides for more selective review with collaborators. Trays can contain slides from multiple studies and any associated metadata, annotations, or analysis markups are included. Inviting collaborators to trays is straightforward due to the intuitive invitation and user group systems.

HALO Link enables users to leverage the latest industry leading tools in image analysis and classification. With seamless integration with Indica Labs’ HALO® platform, users can launch quantitative image analysis using HALO settings, efficiently sort, filter, view, and analyze segmented TMA cores, and deploy advanced HALO AI classifiers, like Indica Labs’ SlideQC BF for detecting folds and other common artifacts.

Organize workflows and track progress and results with the flexible tasks system in HALO Link. Create custom task fields to fit the needs of a study, and quickly update task status within the slide viewer. Sort and filter slides based on task status to identify slides with pending, failed, or completed tasks.

Easily see the big picture by visualizing metadata or analysis results across a study with the diverse plotting tools available in HALO Link. Choose from heatmaps, scatter, violin, and box and whisker plots to evaluate trends and perform quality control checks. Get a closer look at any data point by clicking to open a slide preview or click again to open the slide in a new window.

Quickly locate slides and studies of interest with the variety of search parameters in HALO Link. Search metadata using compound criteria, navigate to results or add them to a slide tray, and save searches for future reuse or modification.

Meet regulatory and compliance requirements with the Compliance Add-on. Labs can leverage exportable study and system-wide audit trails, reason for change capture, and a viewing-only mode.

HALO Link empowers system administrators to customize their deployment with a fully featured Admin dashboard. Administrators can easily manage configuration details and users, create system-wide metadata fields, view login attempts, and review active jobs and requests.

Comprehensive Training and Support Services

At Indica Labs, we take pride in providing top-quality support. Unlimited IT support, scientific support, training, and access to our Learning Portal are included with every license at no additional cost. With support staff in the US, UK, EU, China, and Japan, you are supported in any time zone.

Already using another digital pathology platform? We understand that the idea of moving to something new can be daunting. It may not be as hard as you think! Reach out to us to find out how simple transitioning can be.

Platform Compatibility

File Formats:

  • Non-proprietary (JPG, TIF, OME.TIFF)
  • Nikon (ND2)
  • 3DHistech (MRXS)
  • Akoya (QPTIFF, component TIFF)
  • Olympus / Evident (VSI)
  • Hamamatsu (NDPI, NDPIS)
  • Aperio (SVS, AFI)
  • Zeiss (CZI)
  • Leica (SCN, LIF)
  • Ventana (BIF)
  • Philips (iSyntax, i2Syntax)
  • DICOM (DCM*)
    *whole-slide images


  • Windows PC
  • Macintosh
  • Most Tablets


  • Chrome (recommended)
  • Firefox

HALO Link is compatible with a wide range of file formats, devices and browsers. Yours not on the list? Email us your requirements.

Knowledge Center

Learn more about HALO Link by exploring the tabs below.

NCI Case Study

Download this case study to learn about considerations the National Cancer Institute made when planning to migrate its HALO, HALO AI, and HALO Link deployments to the cloud, and benefits the NCI experienced after migration, including 50% faster HALO image analysis.

COVID-19 Digital Pathology Repository at NCI Case Study

Read this case study to see how HALO Link facilitates real-time international collaboration on high-resolution digital pathology images from COVID-19 patient tissues hosted at the National Institutes of Health.

Ultivue Case Study

Read how Indica Labs deployed every component of the HALO and HALO Link software in the Amazon Cloud so Ultivue employees can analyze, share, and view images anywhere, anytime.

Fred Hutch Case Study

Check out this case study to learn how the Fred Hutchinson Cancer Research Center deployed HALO Link to overcome barriers to image and data sharing with collaborators inside and outside of the institution.

Pharma Services and HALO Link White Paper

Download our white paper to learn how Indica Labs’ Pharma Services collaborates with customers and delivers HALO and HALO AI image analysis using HALO Link.

Our customers are making vital discoveries in research fields including oncology, immunology, infectious disease, and metabolism. Check out some of the research our customers are publishing using the HALO Link Image Management Platform.

Monomeric/dimeric forms of Fgf15/FGF19 show differential activity in hepatocyte proliferation and metabolic function

Courtney M. Williams et al, The FASEB Journal, 2021 Williams and colleagues at Regeneron Pharmaceuticals perform structure/function relationship studies on Fgf15 and FGF19 using site-directed mutagenesis and downstream functional assays in order to understand their distinct functions in a common pathway. Both molecules are therapeutic targets due to involvement in...

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CRISPR-Cas9 gene editing of hepatitis B virus in chronically infected humanized mice

Daniel Stone,et al, Molecular Therapy Methods & Clinical Development, 2021 Hepatitis B leads to over 850,000 deaths annually due to complications from chronic infection including cirrhosis and hepatocellular carcinoma. While antiviral drugs successfully reduce viral loads in patients, a cure does not yet exist. This study out of the Jerome...

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Clinical, histopathological and molecular features of dedifferentiated melanomas: An EORTC Melanoma Group Retrospective Analysis

Melanoma, a highly aggressive type of skin cancer originating from pigment-producing cells called melanocytes, can be a source of diagnostic confusion for pathologists. While primary melanomas are easily recognizable, metastatic melanomas can dedifferentiate and exhibit varied and misleading cyto-architectural characteristics, loss of immunohistochemical markers or present with aberrant morpho-immunophenotypes, leading...

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Deploy HALO Link in a Fully Managed Cloud-Hosted Environment

Indica Labs offers optimized deployments of HALO Link software hosted in Amazon Web Services (AWS). We manage all aspects of implementation and ongoing maintenance to provide a highly performant, scalable, and secure HALO Link environment in the cloud. You maintain full ownership over your AWS account while our AWS Certified Solutions Architects manage your infrastructure and HALO software environments.

Learn more about benefits of cloud-hosted environments in our recent blog post. Or reach out today to our Cloud Services team by using the form below, to learn whether a managed cloud deployment is right for you.

Want to Learn More?

Fill out the form below to request a recorded or live demo of HALO Link or any of our other products or services.
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