TERRA-REF Documentation
WebsiteGitHubTutorials
Primary version
Primary version
  • Introduction
  • Scientific Objectives
  • Experimental Design
    • The Maricopa Agricultural Center (MAC)
    • Controlled Environment Phenotyping
    • Genomics
  • Data
    • How to Access Data
    • Data Products
      • Environmental conditions
      • Phenotype Data
      • Genomics data
      • Fluorescence intensity imaging
      • Geospatial information
      • Hyperspectral imaging data
      • Infrared heat imaging data
      • Meteorological data
      • Point Cloud Data
      • Controlled Environment phenotype data
    • Data Use Policy
    • Manuscripts and Authorship Guidelines
  • Protocols
    • Field Scanner
    • Sensor Calibration
    • Hyperspectral Data
    • Controlled Environment Protocols
    • Manual Field Data Protocols
    • Phenotractor Protocols
    • UAV Protocols
    • Genomic Protocols
  • Technical Documentation
    • Software
    • Data Standards
      • Existing Data Standards
      • Agronomic and Phenotype Data Standards
      • Genomic Data Standards
      • Sensor Data Standards
      • Data Standards Committee
    • Data Product Levels
    • Directory Structure
    • Data Transfer
    • Data Processing Pipeline
    • Time Series Data in Geostreams
    • Data Backup
    • Systems Configuration
  • Code of Conduct
  • Appendix
    • Glossary
    • Accessing BETYdb with GIS Software
  • References
  • Archived Documentation
    • Developer Manual
      • Submitting data to Clowder
      • Submitting data to BETYdb
      • Submitting Data to CoGe
      • Developing Clowder Extractors
Powered by GitBook
On this page
  • Summary
  • Raw data access
  • See also
Export as PDF
  1. Data
  2. Data Products

Fluorescence intensity imaging

PreviousGenomics dataNextGeospatial information

Last updated 4 years ago

Summary

Fluorescence intensity data is collected using the PSII camera.

Each measurement produces 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.

Raw data access

Fluorescence intensity data is available via Clowder and Globus:

  • Globus paths:

    • /raw_data/ps2top

    • /Level_1/ps2_png/

See also

Herritt, Matthew T., et al. "Chlorophyll fluorescence imaging captures photochemical efficiency of grain sorghum (Sorghum bicolor) in a field setting." Plant Methods 16.1 (2020): 1-13.

Clowder: __

Sensor information:

Code on GitHub:

ps2Top collection
LemnaTec PSII
Multispectral extractor