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The Sap Flow Analyzer (SFA) is an R Shiny App to process sap flow data recorded with Heat Field Deformation (HFD) instruments. The app allows to clean the data, determine k-values, calculate sap flow per section and density as well as to estimate sap flow rates and tree water use.

Home Page: https://mcwimm.github.io/SFA_guide/

License: GNU General Public License v3.0

R 97.76% JavaScript 1.44% CSS 0.81%
ecology sapflow shiny-r transpiration trees

sfa's Introduction

Sap Flow Analyzer

The Sap Flow Analyzer (SFA) is an R Shiny App to process sap flow data recorded with Heat Field Deformation (HFD) instruments. The app allows to clean the data, determine k-values, calculate sap flow per section and density as well as to estimate sap flow rates and tree water use. A detailed description of the methodology can be found in Wimmler et al. (in prep.).

User Guide

Go to SFA User Guide

Launch the App

Requirements

Option 1

Run the following lines in R to use the latest version of the app

if(!require("shiny")) install.packages("shiny")
runGitHub(repo = "SFA", username = "mcwimm", destdir = NULL)

Note This option will download and open the application directly from the github repository. This means that each time you run this command, the application will be freshly downloaded to your computer.

Option 2

  • Clone or download the complete project (repo) manually
  • RStudio: open ui.R and click Run App
  • Command line: R -e "shiny::runApp('~/shinyapp')"

For more information visit our User Guide or the Shiny Webpage.

sfa's People

Contributors

mcwimm avatar

Stargazers

avatar

Watchers

avatar avatar

Forkers

hannahjames77 davidgiesemann

sfa's Issues

Missing features

Fixes, improvements and additional features to improve the usability of the SFA based on participant feedback of the SFA-trial:

Settings

  • download all settings to one file
  • upload setting file to continue/restore analysis
  • Wood settngs: use blank/NA as placeholder NOT 0

Data

  • error handling when upload failed
  • improve understanding of 'use data' button (maybe similar to MB?)
  • automize skip, sep, etc.
  • filter/view: wording facet_grid/wrap

Graphs

  • include diurnal graphs in filter section
  • plotly for time series plots
  • unify names of plot objects when saved as rdata

General

  • unify variable names, e.g. dTsym/dTsa vs dTsym:dTsa and dTs-a vs. dTsa

Manual

  • add names of Rdata objects, e.g. for kplots

Comments on SFA 7/7/2020

-Include in instructions that data/ csv file needs to be in project folder
-To load new data file directly after another, I found that program needs to be started over, otherwise K values from the previous data set are not cleared
-Saving graphics to folder= mixed success

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