CODEX® Support
  • Welcome
  • CODEX® Instrument Manager (CIM)
    • Overview
    • User Instructions
      • Experiment
      • Maintenance
      • Transfer Data
      • Settings
    • Microscope Specific Settings
      • Microscope Requirements - Overview
      • Keyence BZ-X800 and BZ-X700
        • Requirements
        • BZ-X800 Image Acquisition Settings
          • Multi-Point (BZ-X800)
        • BZ-X700 Image Acquisition Settings
          • Multi-Point (BZ-X700)
        • Exposure steps
      • Leica DMi8
        • Image Acquisition Settings
      • Zeiss Axio Observer
        • Requirements
        • Image Acquisition Settings
      • Exposure Time Settings Considerations
      • Determination of Signal to Noise Ratio
    • Technical Notes
    • Installation
      • CIM Upgrades
  • CODEX® Processor
    • Overview
    • Installation
      • Install
      • Update
      • Version History
    • User Instructions
      • Quick Start
      • Processing Options
      • Segmentation Options
      • Image Analysis Report
    • Technical Notes
      • Expected Input
      • Expected Output
      • Cycle Alignment
      • Background Subtraction
      • Deconvolution
      • Extended Depth of Field
      • Shading Correction
      • Tile Registration
      • Segmentation & Spillover
      • t-SNE
      • FCS Format
    • Troubleshooting
  • CODEX® Multiplex Analysis Viewer (MAV)
    • Overview
    • Installation
      • System Requirements
      • CODEX® MAV - Download & Install
      • Release Notes
    • User Instructions
      • Quick Start
      • Open Experiment
      • Main Menu
      • Overlay Manager
      • Marker Picker
      • Region Image
      • History Panel
      • Save / Open Analysis
      • Clustering
      • Population Table
      • Cells
      • Marker Manager
      • Gating
      • Voronoi Diagram
      • Other Analysis Operations
    • Technical Notes
      • Algorithm Details
      • FCS Format
    • Public Datasets
    • Troubleshooting
  • Workflow Documents
    • CODEX and microscope setup
    • Reagents and staining
  • Appendix
    • End User License Agreement
    • Third-party Licenses
      • CIM
      • Processor
      • MAV
  • PhenoCycler Analysis
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  • Publicly released CODEX datasets are available upon request.
  • Please provide the requested information to receive access to the CODEX datasets.
  • Downloadable datasets:

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  1. CODEX® Multiplex Analysis Viewer (MAV)

Public Datasets

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Last updated 3 years ago

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Publicly released CODEX datasets are available upon request.

Please provide the to receive access to the CODEX datasets.

Downloadable datasets:

  • CODEX FFPE Breast Cancer 36 AB Dataset

  • CODEX FFPE Tonsil 18 AB Dataset

Public datasets are shared as Box links. Each dataset folder has all the necessary processed files required for data visualization and analysis using ImageJ/CODEX MAV.

The link also has a PDF file with description of the particular experiment, including sample information, panel, etc, and it also has links to the relevant webinar recordings that can be used as references.

Please use the provided link and download all the files. For files that are zipped using , please install the latest version and unzip the .z01 file.

It will require downloading the dataset in parts due to the download size limitations.

Please make sure that the downloaded dataset used for analysis in MAV retains the folder/file and naming structures, as in the original folder provided in the link.

requested information
7-Zip