Segment By Example - Evolved
More insights faster with fewer inputs
Segment by Example in Aivia 16 redefines simplicity and precision with Aivia’s patent-pending deep learning algorithm for accurate cell detection with minimal effort.
Using only three training examples, Segment by Example provides robust parameter estimation for segmenting objects with myriads of morphologies. Detect cell, nucleus, and unlimited types of vesicles in 2D and explore the spatial interaction between them in the revamped feature selection interface for multicompartment analysis with deep learning models optimized for each intracellular structure.
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Accurately segment cells in 2D or 3D with only three samples
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Combine multiple image channels for 2D/3D multiplex cell detection
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Segment cells, nuclei, and unlimited types of vesicles in 2D
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Phenotype diverse cell populations in one go
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Up to 12.8x faster cell and nucleus detection
Tackle complex multiplexed 2D and 3D cellular detection with ease in the evolved Segment by Example tool that enables multiple channel inputs for cell, nucleus or vesicles. Further simplify assays and multiplex spatial analyses with the option to output phenotypes during segmentation – empowering accurate and robust segmentation of different cell phenotypes with large morphological variations – and enhancing analysis accuracy.
Segment by Example’s performance is empowered by a deep learning model breakthrough engineered for speed and accuracy. The new optimized model delivers up to 12.8x faster cell and nucleus detection compared to all our fastest versions, making it ideal for speedy quantification tasks such as counting assays. With Segment by Example’s expanded analysis capabilities, researchers can accelerate image processing and insight generation across complex, large-scale experiments without compromising precision.
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Multi-Well Data Import
Effortless multi-well data exploration
Aivia 16 empowers researchers to seamlessly import, explore, and analyze their data. Import new multi-well experiments directly from LIF or XELF files from the Mica, DMi8 and STELLARIS imaging systems. Navigate across well and field positions from a multi-well experiment with ease and quickly review the data loaded into Aivia in the revamped Experiment Explorer.
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Import multi-well data in LIF and XLEF formats from Mica, DMi8, and STELLARIS
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Navigate across multiple wells and image fields in each within the revamped Experiment Explorer
Guided Assay Analysis
Simplified, end-to-end assay analysis workflows
Accelerate assay analysis workflow from start to finish with predefined assay Guided Sequences from the Analysis Launchpad. Each Guided Sequence provides dedicated tools and interfaces for stepping from condition setups to segmentation, phenotyping, and batch processing.
Connect experiment conditions to downstream data aggregation and insights generation seamlessly by defining conditions for drug concentration, cell lines, cell density, and more. Aggregate and summarize analysis results based on wells and conditions to gain deeper understanding into the relationship between phenotypic measurements and conditions.
Pre-built assay sequences in Aivia 16 guide the user through setup of the entire analysis experiment, extracting valuable information about cell responses to different treatment conditions. Build custom assay analysis pipelines with Aivia’s robust segmentation models and import them as tailored assays for more advanced data interpretations catered to the research needs. Aivia 16 provides four standard assay guided sequences:
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Open Guided Sequence for assays from Analysis Launchpad
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Guided Sequences direct users from condition setup through detection, phenotyping, and batch processing
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Four (4) Pre-built Assays Guided Sequences for common assays: counting, morphological, live/dead, and apoptosis
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Aggregate analysis results per well, per condition, or per plate
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Optimize analysis pipeline with sample image and propagate across entire experiment
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Counting assays – detect objects of interests and quickly count the number of objects per well, conditions, and plates
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Morphological assays – segment objects of interests and extract detailed information about their sizes and shapes
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Apoptosis assays – segment and classify cell phenotypes from Apoptosis assays (such as Caspase-3/7) to gain insights into programmed cell death (apoptosis)
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Live Dead assays – segment, classify, and quantify cell phenotypes from Live Dead assays (such as Calcein AM/EthD) to evaluate cell viability. Define Live and Dead cell types separately for best-in-class cell segmentation and phenotyping, even in confluent cultures.
AI-powered tools are integrated into the assay Guided Sequence, speeding time to analysis results and minimizing the need for extensive, empirical parameter optimization. Define the analysis routine to identify target cells from a representative image, then batch apply the routine across whole multi-well experiment with a single click. Dive deeper into the data while standardizing data filters across all wells through batch processing of Gate by Rules routines.
Guided assay streamlines process to discovery - with greater accuracy and robustness across multi-well samples, offering best-in-class performance for users looking to extract the most value out of their data.
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Interactive Charts for Multi-Well Data
Advanced data exploration for multi-well experiments
Aivia 16 enhances data exploration and unlocks deeper insights for multi-well experiments with aggregate summary charts and data exports for statistical analysis. Generate visual insights with interactive multi-well heatmap built into the Experiment Explorer and Summary charts that aggregate measurements for comparison across phenotype, per well, and across entire plates. Apply quadrant gating in Scatterplot with a single click and save the gating strategies to reuse in future experiments. Plot dose response with automatic curve fitting and IC50/EC50 calculations to gain greater understanding about cell responses to treatment conditions.
Data export has been overhauled in Aivia 16 to support the export of aggregated, multi-well assay analysis results. Export detected objects and summary results at the well- and plate-level as a single CSV file for downstream analysis in third-party statistical software (such as SPSS) and graphing software (such as Excel) to maximize insights extraction from the assay data. Aivia also automatically generates a summary report for multi-well analysis results including detection settings and summary charts for easy documentation and analysis traceability. Combined, these tools empower researchers to make informed decisions faster, driving efficiency in drug screening and phenotypic analyses.
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Extract insights from aggregated multi-well datasets per well, per object set, or per condition
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Summarize and navigate analysis results per well with multi-well heatmap in the Experiment Explorer
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Customize data aggregation in Summary Charts
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Discover cell response in multi-well experiment from Dose Response Curve with IC50/EC50 calculation
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Export combined data to third-party statistical analysis software to dive deeper into the results
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More features and improvements
Aivia 16 brings an additional suite of product and feature enhancements across all corners of the software to improve stability and user experience.
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Improved TauContrast file handling for average arrival time input
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Self-Training Two Class Classifier to divide data into two groups with a single click - as a standalone Classifier or as a part of the Apoptosis Assay workflow
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Track smoothing options to improve visualization of tracked objects in time-lapse images