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FluxBandit

Shiny app for interactive processing and calculation of greenhouse gas emissions

What is it

A single page R-script containing a Shiny app to perform processing of greenhouse gas flux measurements (CO2 and CH4) in chambers using interactive plots. The application currently supports the following sensor systems:

  • LGR: Los Gatos Research - ultraportable/microportable analyzers

  • DIY: Do-it-yourself type sensors

  • LICOR: Licor GHG analyzer

However, it is easy to extend the functionality. See the 'app.R' file for examples if parser functions for how to add a custom parser.

Steps

The app takes the user through all the necessary steps to calculate CO2 and CH4 fluxes:

  1. Select sensor type

  2. Import data (‘.csv’ or ‘.txt’ file)

  3. Adjust metadata

  4. Define measurement:

    • Select time range using slider (coarse adjustment)

    • Select time range interactively in Overview plot (fine adjustment)

    • Inspect selection in Zoom plot and adjust if necessary

  5. Save measurement (repeat steps 2-4)

  6. Download data the results as a '.csv' file

Running the app

There are two options for using the app:

  1. Run the app online.

  2. Download this repository as a '.zip', unzip the contents, launch RStudio, open the 'app.R' script, and hit the 'Run App' button. The application requires a few packages which can be installed using this command from R: install.packages(c("shiny", "dplyr", "lubridate"))

Try out the functionality using the example files included in the 'demo/' folder.

Release notes

v0.7 - Added initial support for a LICOR analyzer.

v0.6 - Fixed an error which could result in time zone changes when exporting results.

v0.5 - Fixed an error in the flux calculation which resulted in incorrect values for CO2 and CH4 fluxes in the previous versions.

Contact

Kenneth Thorø Martinsen (kenneth2810@gmail.com)