Research software HALO®

for healthcare facilitiesfor the pharmaceutical industryfor histology laboratories

Product overview
HALO® is quantitative image analysis software for pathology that delivers whole-slide, cell-by-cell data with integrated support for brightfield and fluorescence workflows. Designed for research, pharma and healthcare laboratories, HALO® provides modular analysis options and workflow-driven tools to accelerate tissue quantification without requiring users to build algorithms from scratch.

Extensive analytics, reliable results
HALO® generates morphometric and multiplexed expression data on a cell-by-cell basis across entire tissue sections while preserving the interactive link between image and cell data. Users can sort, filter and visualize millions of cells, inspect cell populations within tissue architecture, and define custom outputs for downstream analysis.

Leverage integrated AI tools
The platform includes pre-trained deep-learning networks for optimized nuclear and membrane segmentation and supports training custom AI models via the HALO AI option. AI tools are available for both brightfield and fluorescence modules.

AI-powered nuclear and membrane segmentation
Pre-trained AI networks facilitate nuclear and membrane segmentation in brightfield and fluorescence images, simplifying parameter optimization and improving segmentation consistency.

Annotation tools and markups
Annotate and explore images using freehand and reticle-based tools, toggle markups on/off, analyze intensity data, measure distances and capture image snapshots. Interactive markups help investigate results within specific cell populations.

Comprehensive tools
Real-time parameter tuning provides live feedback for algorithm optimization. Built-in heatmap visualization offers spatial insights such as immune cell density around lesions. Image registration enables synchronized viewing of serially stained sections.

Your analysis, your way
Customize analysis outputs, configure calculations, and save settings for batch processing. Background queuing and multi-core processing support high-throughput workflows. Export options include annotations, analysis/classifier settings, reports, summary and object-level data (spreadsheet or FCS formats).

Figure maker
Create publication-quality figures by defining frames, selecting images, and adjusting scale bars, labels, fonts and opacity. Export figures as .png, .tif or .jpg.

Modules

• Multiplex IHC — quantify up to five brightfield stains per cellular compartment (membrane, nucleus, cytoplasm)
• Highplex FL — quantify an unlimited number of fluorescent biomarkers
• Tissue Classifier Add-on — separate tissue classes using a learn-by-example approach
• Spatial Analysis — nearest neighbor, proximity and tumor infiltration analyses
• ISH — analyze up to three chromogenic/silver-labelled DNA/RNA ISH probes per cell
• ISH-IHC — analyze nuclear stain plus up to four IHC biomarkers or ISH probes
• FISH — analyze unlimited fluorescent nucleic acid probes per cell
• FISH-IF — analyze fluorescent ISH probes together with immunofluorescent protein biomarkers
• TMA Add-on — automated high-throughput segmentation and batch analysis of tissue microarrays
• Serial Section Analysis Add-on — analyze serial tissue sections stained with different markers
• Area Quantification (brightfield & fluorescence) — deconvolution and measurement of positive area and average optical density
• Object Colocalization (brightfield & FL) — analyze stain/dye colocalizations and measure density, area, diameter and intensity
• Vacuole Quantification — quantify white spaces, lipid droplets and alveolar areas
• Muscle Fiber / Muscle Fiber FL — quantify fiber area, diameter, perimeter and positivity
• Microglial Activation / Microglial Activation FL — quantify microglial activation based on process length, thickness and branching
• Branch Structure / Branch Structure FL — quantify branch ends, area and length
• Axon Quantification — quantify axons in nerve cross-sections, including G-ratio
• Islet Quantification / Islet FL — count and measure pancreatic islets and positive cells
• Analysis Cluster Add-on — parallel processing of multiple images for maximum throughput

Technical characteristics / specifications

• Software for quantitative image analysis of whole tissue sections with cell-by-cell linkage to images
• Supports brightfield and fluorescence image analysis
• Pre-trained deep-learning networks for nuclear and membrane segmentation; option to train custom AI models
• Interactive markups, annotation tools, measurement and snapshot features
• Real-time parameter tuning and built-in heatmap spatial analytics
• Image registration for serial stains with synchronized navigation
• Batch analysis, multi-core processing and optional analysis cluster for parallel jobs
• Modular licensing and deployment: single workstation, server-based license or enterprise deployment
• Export formats include spreadsheets and FCS; figure export to .png, .tif, .jpg
• Purpose-built modules for specialized workflows (Multiplex IHC, Highplex FL, Spatial Analysis, ISH, FISH, TMA, etc.)
• Intended for research use (For Research Use Only. Not for Use in Diagnostic Procedures.)