TERRA-REF Documentation
WebsiteGitHubTutorials
revisions
revisions
  • Introduction
  • Data Sources
  • Software
  • Scientific Objectives and Experimental Design
    • Protocols
      • Controlled Environment Protocols
      • Manual Field Data Protocols
      • Phenotractor Protocols
      • Sensor Calibration
      • Template Protocol
      • UAV Protocols
    • Experimental Design
      • Experimental Design Danforth
        • Sorghum Lines Danforth
      • Experimental Design Genomics
        • Sorghum Lines Genomics Year 1
        • Sorghum Lines Genomics Year 1 (continued)
        • Sorghum Lines Genomics Year 2
      • Experimental Design MAC
  • User Manual
    • What Data is Available
    • Data Products
      • Environmental conditions
      • Fluorescence intensity imaging
      • Genomics data
      • Geospatial information
      • Hyperspectral imaging data
      • Infrared heat imaging data
      • Multispectral imaging data
      • Meteorological data
      • Phenotype data
      • Point Cloud Data
    • How to Access Data
      • Using Clowder (Sensor and Genoomics data)
      • Using Globus (Sensor and Genomics data)
      • Using BETYdb (trait data, experimental metadata)
        • Accessing BETYdb via ArcMap and other GIS software
      • Using CoGe (Genomics)
      • Using CyVerse (Genomics)
      • Using Analysis Workbench (all data)
    • Data Use Policy
    • Manuscripts and Authorship Guidelines
    • Release / reprocessing schedule
  • Technical Documentation
    • Data Standards
      • Existing Data Standards
      • Agronomic and Phenotype Data Standards
      • Genomic Data Standards
      • Sensor Data Standards
      • Data Standards Committee
    • Directory Structure
    • Data Storage
    • Data Transfer
    • Data Processing Pipeline
      • Geospatial Time Series Structure
    • Data Backup
    • Data Collection
    • Data Product Creation
      • Genomic Data
      • Hyperspectral Data
    • Quality Assurance and Quality Control
    • Systems Configuration
  • Developer Manual
    • Submitting data to Clowder
    • Submitting data to BETYdb
    • Submitting Data to CoGe
    • Developing Clowder Extractors
  • Tutorials
  • Appendix
    • Code of Conduct
    • Collaboration Tools
    • Glossary
Powered by GitBook
On this page
  • Summary
  • Raw data access
  • Computational pipeline
  • Details
  • See also
Export as PDF
  1. User Manual
  2. Data Products

Fluorescence intensity imaging

PreviousEnvironmental conditionsNextGenomics data

Last updated 7 years ago

Summary

Fluorescence intensity data is collected using the PSII camera.

Raw data access

Fluorescence intensity data is available via Clowder and Globus:

  • Clowder:

  • Globus path: /sites/ua-mac/raw_data/ps2top

  • Sensor information:

For details about using this data via Clowder or Globus, please see section.

Computational pipeline

  • Description: Raw image output is converted to a raster format (netCDF\/GeoTIFF)

  • Output: /sites/ua_mac/Level_1/ps2top

Details

There are 102 bin files. The first (index 0) is an image taken right before the LED are switched on (dark reference). Frame 1 to 100 are the 100 images taken, with the LEDs on. In binary file 102 (index 101) is a list with the timestamps of each frame of the 100 frames.

Right now the LED on timespan is 1s thus the first 50 frames are taken with LEDs on the latter 50 frames with LED off..

See also

ps2Top collection
LemnaTec PSII
Data Access
Multispectral extractor
Geospatial information