ILLUMINATED.

With the

PATHOLOGY

HALO® IMAGE ANALYSIS

PLATFORM

, the gold standard analysis

solution for digital pathology.

PATHOLOGY

ILLUMINATED.

With the HALO® IMAGE ANALYSIS PLATFORM

HALO®

IMAGE ANALYSIS PLATFORM

HALO is the gold standard image analysis platform for quantitative tissue analysis in digital pathology.

With unmatched ease-of-use and scalability, powerful analytic capabilities, and the fastest processing speeds available for digital pathology, pharmaceutical, healthcare and research organizations worldwide are using HALO for high-throughput, quantitative tissue analysis in oncology, neuroscience, metabolism, toxicology and more.

Watch a video of the HALO platform in action here

HALO®

IMAGE ANALYSIS PLATFORM

HALO is the gold standard image analysis platform for quantitative tissue analysis in digital pathology.

Watch a video of the HALO platform in action here

EASY-TO-USE MODULES & ADD-ONS

HALO modules simplify the analysis workflow so there is no need to ‘build’ algorithms from scratch. Modules make HALO easy-to-use and understand which means you can spend less time learning software and more time analyzing data.

HALO add-ons can be used in combination with any of the other analysis modules to improve the analysis workflow. These include tools to help automate tissue segmentation, such as tissue classifier, serial section analysis, and TMA, as well as tools to improve image processing speeds for high-throughput labs, such as analysis cluster.

EXTENSIVE ANALYTICS

HALO reports morphological and multiplexed expression data on a cell-by-cell basis across entire tissue sections and maintains an interactive link between cell data and cell image. Click on any cell in the image and immediately see analysis outputs for that specific cell. Sorting and filtering capabilities allow the user to mine millions of cells while visually assessing corresponding cell populations. For example, sort cells according to biomarker intensity and immediately locate cells with highest intensity in the image. Just imagine the endless possibilities.

EXTENSIVE ANALYTICS

SCALABLE PLATFORM

HALO’s modular design and flexible licensing allow it to be adapted to any requirement and budget. Start with all the modules or just a few and add more modules as your needs change. Use HALO on a single workstation or ramp up to a server-based license for your entire group. Purchase a permanent license or renew annually.

Discover
HALO Modules

Click on the links below to explore our most popular HALO modules & add-ons. Use the category filters or click the 'Load More' button at the bottom of the list to view additional options.

All

CELL-BASED ANALYSIS

OBJECT BASED ANALYSIS

Quantify expression of an unlimited number of biomarkers in any cellular compartment - membrane, nucleus or cytoplasm.

Highplex FL

Quantify expression of up to five brightfield stains in any cellular compartment - membrane, nucleus or cytoplasm.

Multiplex IHC

Click here to fill out a demo request form. Upload up to three images if you would like to test analysis on your own slides.

Upload Images

Separate multiple tissue classes across a tissue using a learn-by-example approach. Can be used in conjuction with all other modules (fluorescent and brightfield) to select specific tissue classes for further analysis.

Tissue Classifier Add-on

Plot cells and objects from one or more images and perform nearest neighbor analysis, proximity analysis, and tumor infiltration analysis.

Spatial Analysis

Quantify spot number, optical density and co-expression of one or two brightfield RNA or DNA probes on a per cell basis. Includes support for brightfield RNAscope® assays.

ISH (RNAScope®)

Quantify IHC positivity and spot number, optical density and co-expression of one or two brightfield RNA or DNA probes on a per cell basis. Includes support for brightfield RNAscope® assays.

ISH-IHC (RNAScope®)

Quantify an unlimited number of fluorescent RNA/DNA probes and IF protein biomarkers on a per cell basis. Includes support for fluorescent RNAscope® assays.

FISH-IF (RNAScope®)

Quantify number, intensity and co-expression of an unlimited number of fluorescently labeled RNA or DNA probes on a per cell basis. Includes support for fluorescent RNAscope ® assays.

Multiplex FISH (RNAScope®)

Module to assist in the segmentation of TMA spots for further analysis.

Tissue Microarray (TMA) Add-on

Deconvolve up to five colors in brightfield and measure positive area and average optical density for each stain and stain colocalization (where applicable).

Area Quantification

Quantify expression of up to four brightfield cytoplasmic/nuclear markers on a per cell basis and bin cells according to intensity (1+, 2+ and 3+).

Cytonuclear IHC

Measure the positive area, average intensity and dye colocalization (where applicable) of an unlimited number of fluorescent dyes.

Area Quantification FL

Quantify expression of an unlimited number of fluorescently labeled cytoplasmic/nuclear markers on a per cell basis and bin cells according to intensity (1+, 2+ and 3+).

Cytonuclear FL

Quantify intensity of brightfield membrane markers on a per cell basis and bin cells according to intensity (0, 1+, 2+, 3+).

Membrane IHC

Quantify intensity of fluorescently-labeled membrane markers on a per cell basis and bin cells according to intensity (0, 1+, 2+, 3+).

Membrane FL

Count one or two objects and measure the object area, diameter, stain intensity, and colocalization (where applicable). Microvessel and amyloid plaque quantification are most common applications.

Object Colocalization

Quantifies vacuole area, diameter, perimeter, and number of vacuoles per region of interest. Measures steatosis in kidney, lipid droplets in adipose tissue, and alveolar area in lung tissue.

Vacuole

Count one or two fluorescently labeled objects and measures the object area, diameter, stain intensity, and colocalization (where applicable). Microvessel and amyloid plaque quantification are most common applications.

Object Colocalization FL

Quantifies area, diameter, and perimeter of muscle fibers stained with laminin or other fiber membrane stain.

Muscle Fiber

Quantifies area, diameter, and perimeter of fluorescently-labelled muscle fibers stained with membrane markers, such as laminin.

Muscle Fiber FL

Quantify branched objects such as capillaries in brightfield and fluorescence.

Branch Structure

Count pancreatic islets, quantify number of alpha and beta cells in each islet, and determine area of islets stained with insulin and glucagon or other islet-specific stains

Islet IHC

Count pancreatic islets fluorescently-labeled with up to three dyes, quantify number of dye positive cells per islet and area of dye positivity per islet.

Islet FL

Quantify microglial activation based on length and thickness of microglial processes.

Microglial Activation

Quantify up to two fluorescently-labeled DNA probes to measure amplification or deletion.

Amplification & Deletion FISH

Meaure gene rearrangements detected using break-apart fusion probes.

Break Apart Fusion FISH

Analyze serially stained tissue sections stained with different markers or a single tissue section which has been stained, stripped and re-stained for multiple markers.

Serial Section Analysis Add-on

Designed for organization with large volume of slides or users, analysis clusters speed up analysis by facilitating simultaneous processing of multiple images in parallel.

Analysis Cluster Add-on

Quantify axons in cross sections. Calculate axon area, myelin area, myelin thickness, inner and outer axon diameter, and G-ratio.

Axon

Discover HALO Modules

Click on the links below to explore our most popular HALO modules & add-ons. Use the category filters or click the 'Load More' button at the bottom of the list to view additional options.

All

CELL-BASED ANALYSIS

OBJECT BASED ANALYSIS

Quantify expression of an unlimited number of biomarkers in any cellular compartment - membrane, nucleus or cytoplasm.

Highplex FL

Quantify expression of up to five brightfield stains in any cellular compartment - membrane, nucleus or cytoplasm.

Multiplex IHC

Click here to initiate your free proof-of-concept HALO image analysis.

FREE IMAGE ANALYSIS

Tissue Classifier Add-on

Plot cells and objects from one or more images and perform nearest neighbor analysis, proximity analysis, and tumor infiltration analysis.

Spatial Analysis

Quantify spot number, optical density and co-expression of one or two brightfield RNA or DNA probes on a per cell basis. Includes support for brightfield RNAscope® assays.

ISH (RNAScope®)

Quantify IHC positivity and spot number, optical density and co-expression of one or two brightfield RNA or DNA probes on a per cell basis. Includes support for brightfield RNAscope® assays.

ISH-IHC (RNAScope®)

Quantify an unlimited number of fluorescent RNA/DNA probes and IF protein biomarkers on a per cell basis. Includes support for fluorescent RNAscope® assays.

FISH-IF (RNAScope®)

Quantify number, intensity and co-expression of an unlimited number of fluorescently labeled RNA or DNA probes on a per cell basis. Includes support for fluorescent RNAscope ® assays.

Multiplex FISH (RNAScope®)

Module to assist in the segmentation of TMA spots for further analysis.

Tissue Microarray (TMA) Add-on

Deconvolve up to five colors in brightfield and measure positive area and average optical density for each stain and stain colocalization (where applicable).

Area Quantification

Quantify expression of up to four brightfield cytoplasmic/nuclear markers on a per cell basis and bin cells according to intensity (1+, 2+ and 3+).

Cytonuclear IHC

Measure the positive area, average intensity and dye colocalization (where applicable) of an unlimited number of fluorescent dyes.

Area Quantification FL

Quantify expression of an unlimited number of fluorescently labeled cytoplasmic/nuclear markers on a per cell basis and bin cells according to intensity (1+, 2+ and 3+).

Cytonuclear FL

Quantify intensity of brightfield membrane markers on a per cell basis and bin cells according to intensity (0, 1+, 2+, 3+).

Membrane IHC

Quantify intensity of fluorescently-labeled membrane markers on a per cell basis and bin cells according to intensity (0, 1+, 2+, 3+).

Membrane FL

Count one or two objects and measure the object area, diameter, stain intensity, and colocalization (where applicable). Microvessel and amyloid plaque quantification are most common applications.

Object Colocalization

Quantifies vacuole area, diameter, perimeter, and number of vacuoles per region of interest. Measures steatosis in kidney, lipid droplets in adipose tissue, and alveolar area in lung tissue.

Vacuole

Object Colocalization FL

Quantifies area, diameter, and perimeter of muscle fibers stained with laminin or other fiber membrane stain.

Muscle Fiber

Quantifies area, diameter, and perimeter of fluorescently-labelled muscle fibers stained with membrane markers, such as laminin.

Muscle Fiber FL

Quantify branched objects such as capillaries in brightfield and fluorescence.

Branch Structure

Count pancreatic islets, quantify number of alpha and beta cells in each islet, and determine area of islets stained with insulin and glucagon or other islet-specific stains

Islet IHC

Count pancreatic islets fluorescently-labeled with up to three dyes, quantify number of dye positive cells per islet and area of dye positivity per islet.

Islet FL

Quantify microglial activation based on length and thickness of microglial processes.

Microglial Activation

Quantify up to two fluorescently-labeled DNA probes to measure amplification or deletion.

Amplification & Deletion FISH

Meaure gene rearrangements detected using break-apart fusion probes.

Break Apart Fusion FISH

Analyze serially stained tissue sections stained with different markers or a single tissue section which has been stained, stripped and re-stained for multiple markers.

Serial Section Analysis Add-on

Designed for organization with large volume of slides or users, analysis clusters speed up analysis by facilitating simultaneous processing of multiple images in parallel.

Analysis Cluster Add-on

Quantify axons in cross sections. Calculate axon area, myelin area, myelin thickness, inner and outer axon diameter, and G-ratio.

Axon

Podcasts

Check out the latest National Society for Histotechnology HistoHelp podcast with Dave Krull and Adam Smith!
Click the tab on the below to listen!

HistoHelp Podcasts: Listen Now

In the first episode of HistoHelp Season 2, Artificial Intelligence: Not Scary Afterall David Krull gives a great intro to AI for Digital Pathology. And even a shout out on the ease of use of HALO AI! Click the play button below to listen and learn how AI is being used to improve patient diagnosis.

In Part 1 of the HistoHelp AI in the Lab podcast, David Krull, the NSH podcast expert and AI advocate, talks to Adam Smith, Director of Life Science Applications at Indica Labs, about approaches to implement and validate AI in the lab. Click the play button below to listen and learn a little bit about how to train AI algorithms!

Platform Compatibility

HALO is compatible with a broad spectrum of image and digital slide formats. Yours not on the list? Email us your requirements.

File Formats

Non-proprietary (JPG, TIF, OME.TIFF)
Nikon (ND2)
3D Histech (MRXS)
Akoya (QPTIFF, component TIFF)
Olympus (VSI)
Hamamatsu (NDPI, NDPIS)
Aperio (SVS, AFI)
Zeiss (CZI)
Leica (SCN, LIF)
Ventana (BIF)
Philips (iSyntax)
KFBIO (KFB)
DICOM (DCM*)

*whole-slide images

HALO Application Notes

Follow the links below to explore a few of the most popular HALO applications.

Fluorescence

Analyze Multiplexed Fluorescent Biomarkers in Whole Slide PerkinElmer Vectra® Polaris images fused in HALO

We demonstrate how HALO can create a multispectral 7-plex whole slide image from individual field-of-view image tiles captured from the PerkinElmer Vectra 3 or Polaris platform and analyze these images using our highplex FL module and spatial analysis modules.

Brightfield

Measure immune cell density and spatial distance to tumor cells within the tumor and invasive margin

Using our multiplex IHC module, we quantify immune cells and tumor cell markers across whole slide images. The tissue classifier add-on is employed to segment tumor and stroma and the spatial analysis module is used for proximity and invasive margin analysis.

Brightfield and Fluorescence

Quantify Single and Multiplexed RNAscope® probes across whole slide tissues

Using our ISH module for brightfield and our FISH module for fluorescence, we demonstrate how to quantify ISH signal from RNAScope® assays on a per cell or per unit area basis and output an overall expression score based on ACD Bio’s recommended scoring guidelines.

Read what our customers are publishing

Our customers are making vital discoveries in oncology, neuroscience, and diabetes research. Check out some of the research our customers are publishing using the HALO Image Analysis Platform and Indica analysis modules.

Multiomic analysis and immunoprofiling reveal distinct subtypes of human angiosarcoma

Jason Yongsheng Chan,et al, The Journal of Clinical Investigation, 2020
To molecularly characterize the rare and aggressive tumors known as angiosarcomas, Chan et al utilized a combination of transcriptomic immuno-oncology profiling with multiplex immunohistochemistry and immunofluorescence. HALO image analysis software was used for the quantification of PD-L1, CD68, CD8, FOXP3, CD15, and ERG. From these studies, three phenotypes of patients were identified according to etiology, anatomical origin, signaling pathways, and the tumor inflammation…
An ex vivo tumor fragment platform to dissect response to PD-1 blockade in cancer

Dr. Paula Voabil and colleagues used a patient derived tumor fragment platform to investigate immune responses immediately following PD-1 blockade. The Tissue Classifier Add-on and the Multiplex IHC module of HALO® were used in this publication to quantify immune biomarkers in the tumor and stroma, contributing to their conclusion that the ability of tumors to respond to PD-1 blockage correlates with the ability of intratumoral immune cells to be reactivated by the blockade.
Mechanical regulation of glycolysis via cytoskeleton architecture

Jin Suk Park,et al, Nature, 2020
Park and colleagues explored the question of how regulation of glycolysis responds to structural changes in tissue architecture and chose lung cells and tissue for their studies due to the regular mechanical stress experienced during respiration. In vitro studies demonstrated downregulation of glycolysis following a change in substrate via the degradation of the platelet isoform of the phosphofructokinase (PFKP) enzyme. In vitro studies also showed that oncogenic transformation…
Natural killer cells in the human lung tumor microenvironment display immune inhibitory functions

Jules Russick, et al, Journal for ImmunoTherapy of Cancer, 2020
Natural killer (NK) cells are known to have cytotoxic effector functions in tumor immunosurveillance. More recently, evidence of a second potentially inhibitory or regulatory role have emerged. Here, Russick et al compared expression patterns of NK cells inside tumors to nontumoral NK cells to understand their inhibitory functions in the context of the non-small cell lung carcinoma (NSCLC) tumor microenvironment (TME). These studies…
Kaiso (ZBTB33) subcellular partitioning functionally links LC3A/B, the tumor microenvironment, and breast cancer survival

Sandeep K Singhal, et al, Communications Biology, 2021
Singhal and colleagues apply quantitative automated image analysis to investigate the role of a transcriptional regulator, Kaiso, in a diverse cohort of breast cancer tumors. Specifically, they utilized the Highplex FL Module with the Tissue Microarray Module of HALO to characterize the tumor microenvironment in breast cancer TMA cores, including pan-cytokeratin, PD-L1, CD8, and CD68. They found that cytoplasmic Kaiso is associated with an immune-suppressed tumor microenvironment and…
Early-onset impairment of the ubiquitin-proteasome system in dopaminergic neurons caused by α-synuclein

Chris McKinnon, et al, Acta Neuropathologica Communications, 2020
In this study, McKinnon et al identify overexpression of α-synuclein leading to catalytic impairment of the 26S proteosome in defined regions of rat brains. Brain tissue was fixed following α-synuclein overexpression for immunofluorescence studies of dopaminergic neurons which were quantified by the HALO image analysis platform. Future research will focus on characterizing the relationship between proteasome impairment and neurodegeneration.
Ad26 vaccine protects against SARS-CoV-2 severe clinical disease in hamsters

Lisa H Tostanoski, et al, Nature Medicine, 2020
In this study led by researchers at Harvard Medical School, they report the first demonstration of prevention of severe clinical disease in a hamster model of SARS-CoV-2 that were provided with a single immunization of the adenovirus serotype 26 (Ad26) vaccine. The Ad26 vaccine utilizes a stabilized spike protein of the SARS-CoV-2 and in the United States this vaccine is commonly known as the Johnson…

Read High Impact Publications <

Click the button above to check out the latest high-impact publications where HALO image analysis was used.

The digital quantification of PD1T cells has strong potential to guide the treatment of lung cancer patients with PD-1 inhibitors... The HALO platform strongly facilitated the research and development of this novel predictive indicator for clinical translation

- Dr. Viktor Koelzer, Pathologist and SNSF research fellow Institute of Cancer and Genomic Science, University of Birmingham

As a CRO specifically offering detailed high precision histopathology IA services, we chose the HALO platform as it enables us to develop tailored image analysis algorithms and generate highly detailed and robust data in a timely manner to address key questions our Clients face when interpreting drug efficacy, safety or biomarker related responses from their histology studies.

- John Waller, Phd, Chief Operations Officer, OracleBio Ltd

In my opinion the “ease-of-use” with the Halo system is second to none particularly when I think of some of the issues we faced in the past. Even when compared with other current systems Halo is being recognised by major Pharma companies, that run other more expensive mainframe type analysis systems, for the “ease-of-use” aspect...

- David Fairley, Managing Director, Histologix

Top Notch Training & Support

We’ve worked hard to ensure our HALO platform interfaces are the most intuitive in the industry, but we realize that you may still need extra support. We’ve got you covered!

Unlimited IT support, scientific support & training are included with every license at no additional cost. With support staff in the US, UK and Japan, you are supported in any time zone. Need help tuning an algorithm or training for new staff – we are just a call away.

The vast majority of our new customers heard about Indica Labs from an existing customer. The two primary reasons for referral – our user-friendly technology and excellent support. We know that you have a choice in image analysis providers and we strive to make sure every customers is 100% satisfied.

Top Notch Training & Support

We’ve worked hard to ensure our HALO platform interfaces are the most intuitive in the industry, but we realize that you may still need extra support. We’ve got you covered!

Want to see more?

Fill out the form below to request a recorded or live demo of HALO or any of our other products or services.
You can also drop us an email at info@indicalab.com

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EASY-TO-USE MODULES & ADD-ONS

EXTENSIVE ANALYTICS

EXTENSIVE ANALYTICS

SCALABLE PLATFORM

Discover
HALO Modules

Discover HALO Modules

Podcasts

HistoHelp Podcasts: Listen Now

Platform Compatibility

File Formats

HALO Application Notes

Fluorescence

Analyze Multiplexed Fluorescent Biomarkers in Whole Slide PerkinElmer Vectra® Polaris images fused in HALO

Brightfield

Measure immune cell density and spatial distance to tumor cells within the tumor and invasive margin

Brightfield and Fluorescence

Quantify Single and Multiplexed RNAscope® probes across whole slide tissues

Read what our customers are publishing

- Dr. Viktor Koelzer, Pathologist and SNSF research fellow Institute of Cancer and Genomic Science, University of Birmingham

- John Waller, Phd, Chief Operations Officer, OracleBio Ltd

- David Fairley, Managing Director, Histologix

Top Notch Training & Support

Top Notch Training & Support

Want to see more?

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