Flow Cytometry Software for Advanced Analysis

OMIQ is cloud-based flow cytometry software for classical and high-dimensional analysis, combining gating, autogating, clustering and dimensionality reduction with reproducible workflows and easy collaboration.
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Cloud Platform
Classical Analysis
High Dimensional Analysis
Data Management

Cloud-Based Flow Cytometry Software

Harness the power of cloud sharing and computing for faster, seamless data analysis—unlocking insights with ease.

Cloud Power, Zero Compromise

OMIQ’s cloud-powered platform eliminates crashes, lag, and hardware limitations, allowing seamless analysis of massive datasets from any computer. With cloud storage and parallel computing, you can run multiple analyses at once—boosting productivity while OMIQ handles the heavy lifting.

Cloud Sharing and Collaboration

Easily invite colleagues and assign roles with customizable permission levels. Share not just results, but the full context behind them — including datasets and workflows. Whether you're collaborating on analysis steps or reviewing outcomes, OMIQ makes it simple to share the entire process, securely and seamlessly.

Seamlessly Integrated Algorithms

Fully integrated clustering, dimension reduction, normalization, differential expression, trajectory, and data cleaning eliminate the need for external tools, ensuring seamless, reproducible analysis.

Reproducible Flow Cytometry Workflows

Every analysis step in OMIQ is captured in a workflow, including gates, transformations, algorithms and settings. Workflows can be reused on new datasets and shared with collaborators, helping researchers reproduce analyses and document how results were generated.

30-Day Free Trial

Classical Flow Cytometry Analysis

OMIQ has you covered for your classic flow analysis needs, from data to insight

Compensation, Unmixing and Scaling

Create and apply spillover and unmixing matrices for traditional and spectral flow cytometry with step-by-step tools for accuracy and efficiency. Seamlessly adjust scaling within an integrated workflow.

Manual and Interactive Gating

Interactive gating tools streamline data filtering and population refinement with intuitive boundaries, subsampling, and batch-aligned metadata. Features like Backgating and Gating Hierarchy enhance visibility and interactivity for easier analysis.

Automated Gating with AdaptiGate

Automatically apply your gating strategy across files with machine-learning powered autogating. AdaptiGate learns from your existing gating strategy and automatically adjusts gates for each file, helping reduce manual gating while maintaining consistent, reproducible analysis. Review or edit every gate to keep your analysis transparent and under your control.

Plotting and Visualization

Create detailed figures and reports with intuitive tools for QA, plotting, and layout. Batch export ensures you capture and share all results—boosting collaboration and reporting efficiency.

Reports and Data Export

Export plots and reports in PNG, SVG, PDF, or PPT—plus stats like asymmetry and MFI. Seamless Prism integration enables deeper analysis and flexible visualization.

Flow Cytometry Data Import

OMIQ supports FCS, CSV and LMD files, as well as data from spectral and mass cytometry. Data can be uploaded manually or ingested automatically through supported integrations. . Once uploaded, your data is easy to share and always up to date, giving your team a single, reliable source of truth.

30-Day Free Trial

High-Dimensional Flow Cytometry Analysis

Analyze complex, high-parameter cytometry datasets with integrated machine learning and statistical algorithms

Dimensionality Reduction

OMIQ offers powerful integrated tools for dimensionality reduction, including t-SNE, opt-SNE, t-SNE-CUDA, UMAP, PCA, EmbedSOM, FIt-SNE, TriMap, Isomap, PaCMAP and PHATE. With opt-SNE, you can eliminate guesswork in parameter settings and consistently achieve great results.

Clustering

Automatically categorize data with algorithms including FlowSOM, Phenograph, PARC, SPADE. ClusterX and DensVM. Virtual concatenation simplifies analysis, while graphs and heatmaps reveal patterns and relationships.

Statistical Differential Analysis

Cut through the noise and uncover what matters with OMIQ’s powerful statistical methods and visualizations using SAM, edgeR, Citrus or diffcyt. Identify the strongest stratifying signals aligned with your clinical or experimental metadata, enabling you to focus on the most relevant insights for your analysis.

Trajectory Inference

Discover and visualize cellular development pathways with OMIQ’s trajectory inference tools including Wanderlust, Wishbone, Isomap and PHATE. Identify differentiation switch points and understand cell fate transitions to gain deeper insights into cellular processes.

Automated Data Cleaning

Everything starts with clean data. Incorporate algorithms such as flowAI, flowCut and PeacoQC into your workflow to help automate and standardize this key step of analysis.

Normalize Across Files

Tame batch effects and other unwanted signal differences between files in order to improve comparability for analysis and visualization. Natively integrated algorithms include fdaNorm, gaussNorm, CytoNorm and CyCombine.

30-Day Free Trial

Flow Cytometry Data Management and Integrations

Remove the data bottleneck with automations designed to scale your analysis pipelines

Prism Integration

Automate your GraphPad Prism analysis. OMIQ now supports preconfigured Prism files as templates. Simply upload your template and export completed Prism analysis from OMIQ, including reshaping your data, statistical analysis, graphs and layouts. Completed analysis, before you even open the file.

EasyPanel Integration

Validate single-stained controls by comparing actual vs. expected spectra with EasyPanel—ensuring accurate unmixing and reliable results in OMIQ.

OMIQ Luma

Transform your flow cytometry data management with OMIQ Luma. Streamline every step of your data journey, from instrument to insight, with automated uploads, end-to-end traceability, and integrated analysis.

Frequently Asked Questions

What is OMIQ?

OMIQ is cloud-based flow cytometry data analysis software built for classical and high-dimensional cytometry workflows. OMIQ combines cloud-powered analysis, easy collaboration, and powerful visualizations in a secure, scalable environment.

Who is OMIQ for?

OMIQ is designed for researchers, academic laboratories, core facilities and organizations performing flow, spectral or mass cytometry analysis. It supports both routine manual gating and advanced high-dimensional analysis, from individual experiments to large collaborative datasets.

Can I do traditional gating in OMIQ?

Yes. OMIQ offers an intuitive manual gating interface, alongside interactive gating features including Backgating and Gating Hierarchy.

Does OMIQ support automated gating?

Yes. OMIQ supports machine-learning powered automated gating with AdaptiGate. AdaptiGate learns from an existing gating strategy and automatically adjusts gates for individual files, helping reduce manual gating and improve consistency across datasets.

Does OMIQ support spectral cytometry?

OMIQ supports spectral cytometry as well as conventional fluorescence and mass cytometry. It provides tools for spectral unmixing, scaling, gating and high-dimensional analysis of high-parameter datasets.

Can I use OMIQ instead of FlowJo?

Yes. OMIQ can be used as a cloud-based alternative to FlowJo for classical and advanced flow cytometry analysis. OMIQ includes manual gating, compensation, unmixing, visualization and reporting, as well as integrated high-dimensional algorithms, automated gating, cloud collaboration and reproducible workflows.

How does OMIQ compare to FlowJo?

OMIQ is a cloud-based alternative to FlowJo with 30+ built-in algorithms including t-SNE, UMAP, and FlowSOM. Handle large datasets from anywhere with no installation required and real-time collaboration. Find full OMIQ vs FlowJo comparison.

Is OMIQ secure?

Absolutely. OMIQ is ISO/IEC 27001:2022 compliant has enterprise-grade security, including GxP and 21 CFR Part 11-ready options.

How much does OMIQ cost?

OMIQ pricing is available on the pricing page with different plans to suit individuals, teams or Enterprise. Academic and student discounts are available.

Is there a free trial?

Yes! You can sign up for a free trial with full access to all features for 30 days.

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