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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  1. CODEX® Processor
  2. Installation

Version History

Version

Date

Major Changes

1.7.0.6

2020-01-27

Added image analysis report

Added dataset integrity validation

Added run name Added region preview

Switched to OpenJDK

1.6.0.16

2019-10-18

Fixed EDF focal map issues

Added EDF to main pipeline Added diagnostic output

Added t-SNE

1.5.0.48b

2019-07-30

Fixed tile registration for multi-regions

1.5.0.48

2019-07-22

Added extended depth of field (EDF) stitching Fixed deconvolution brightness scaling

Fixed shading correction dependency

1.5.0.46

2019-06-11

Reduced deconvolution and shading correction memory use

1.5.0.45

2019-06-04

Added sub-sampling for tile registration

Added full brightness compensation for deconvolution

Added compression to prevent additional saturation

1.5.0.44

2019-05-22

Restored and added additional background subtraction modes 1) min-min-max, 2) min-min-empty and 3) min-min-max-empty

1.5.0.43

2019-05-14

Added support for new version of Microvolution, akoya_2019.03

1.5.0.42

2019-04-16

Added support for Keyence timestamped cycle folders

1.5.0.40

2019-04-12

Added support for min-min-empty background subtraction

1.5.0.39

2019-03-27

Fixed reading segmentation.json

1.5.0.38

2019-03-20

Fixed diagnosis output exception check

1.5.0.36

2019-01-15

Codified experiment.json format

1.5.0.32

2018-12-27

Added new background subtraction algorithm

Improved tile registration

Added support for sub-tile best focus

Added processing time estimate

1.5.0.30

2018-10-22

Improved multi-threading and resource prioritization

Improved dataset scanning

Improved installer

Added diagnostic output and default placeholder channel names

1.5.0.25

2018-09-25

Initial release

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Last updated 5 years ago

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