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Cloud Based Single Cell Informatics

Single Cell Informatics

Overview of Products

Qognit has developed a cloud based software platform that has been specifically designed to meet the challenges of high-dimensional, large scale single cell data. Our platform is highly performant and feature rich with built-in intelligence for single cell data management and analysis. Each of our products, built on this foundation, focus on specific assay formats (e.g. cytometry), providing the end-user with highly interactive interfaces to perform end-to-end workflows ranging from designing experiments to managing data and performing analysis. All of our products are designed to integrate with other informatics systems with centralization of data and analysis and can scale with your growing data needs. Current product offerings include Ryvett for cytometry, Celsight for single cell multi-omics data, and PlexScope for multiplex beads assays.



For the entire life cycle of cytometry data managment

Ryvett is a cloud-based software platform to manage end-to-end cytometry workflows and analyze data. It is hosted on a dedicated instance (server) for each customer that provides a secure, version-controlled and audit trailed repository to capture and mine the data. Ryvett’s highly scalable solution offers extensive functionality that is fully accessible via a browser:

  • Collaborate and design experiments with automated data entry and export to acquisition ready experiment files to various instrument including BD, Cytek, BioRad ZE5 and Attunes
  • Perform high-throughput gating that is not constrained by the number of wells, number of events or folder structures.
  • Conduct interactive single-cell data analysis including dimensionality reduction (e.g. UMAP) combined with visual analytics to simultaneously explore subjects, cell types, and markers. Fully leverage cloud computing for speed and interactivity.
  • Live data connection to Ryvett from various analytics tools including Tableau and Spotfire
  • Use extensive REST API functionality to integrate with other laboratory systems including robotics and LIMS
  • 21 CFR Part 11 Compliant software with traceability for audit readiness and can be validated per customer request
Collaborate and Design Experiments

Collaborate and Design Experiments

  • Automated data entry with standardized annotations offering full specification of antibody details, cell treatments, kinetics, concentrations, inter-well relationships, and keywords
  • Create acquisition ready instrument files for various cytometers including BD, Attune, and Cytek instruments

Single Cell Data Capture

Single Cell Data Capture

  • Upload new or existing FCS files with a few simple clicks
  • Offers versioning and consistent annotation
  • Search by any combination of meta-data & export data packages

Gating and Single Cell Data Exploration

Gating and Single Cell Data Exploration

  • Perform high-throughput gating that is not constrained by the number of wells, event count or folder structures while leveraging a number of highly optimized software features to tackle dimensionality, consistency of naming and quality control
  • Search for data by any combination of metadata and leverage sophisticated high-throughput functionality to define and edit cell types. Import gating from other tools (e.g. FlowJo, BD Diva)
  • Perform single cell data analysis without or with minimal gating to visually explore expression (and coexpression) patterns in high-dimensional data using a combination of dimensionality reduction and other proprietary algorithms.
Quantify and Explore

Quantify and Explore

  • Quantify biological signals and leverage built-in analysis tools including dose-response analysis and dashboards
  • Encode cross well referencing and compute normalized signals that span multiple wells
  • Automated updating to quantified data upon changes to gating or input single cell data
  • Automated computation on new data uploads


Single cell application for multi-omics data

  • Automatically unmix barcoded sample data with interactive visuals to refine and QC
  • Add or upload sample annotations
  • Define cell types by traditional gating or automated methods, quantify counts, frequencies and other metrics
  • Apply standard filtering methods and normalization to RNA data
  • Conduct differential and other analyses using antibody and RNA data
  • Perform highly interactive analyses via results dashboard with visual (UMAP and more), create statistical summaries and downloadable report
  • Easy to use interface for research scientists and strong API for bioinformaticians to interface with new algorithms and methods
  • Share and Collaborate with others


For multiplex bead assays

PlexScope is a cloud-based software platform designed to provide highly automated data processing and reporting for multiplex bead data. Raw data to computed concentrations in minutes with easy to use interface accessible via browser:

  • Raw data to computed concentrations in minutes with easy to use interface, accessible via browser
  • Software integrated with your bead panels, if desired at the lot level
  • Machine learning driven bead identification, that is highly accurate (> 98%) and extensively tested
  • Highly interactive results dashboard with visual and statistical summaries
  • Secure data transfer and built-in user specific access control
  • Share and Collaborate with others
Panels of Antibodies

Panels of Antibodies

  • Predefined panels with no manual entry
  • Standardized annotations
  • Lot level integration with easy specification of replicates and dilution

Auto-Gate Beads

Auto-Gate Beads

  • Fully automated and highly accurate identification of beads
  • Easy to use review and edit functionality

Data Analysis

Data Analysis

  • Highly interactive results dashboard
  • Built in statistical basis for choice of curve
  • Downloadable report


September 25-29
New Orleans

ICCS 2020