README.md

In samdchamberlain/wetlandcomparison: Reproduces Research for Sacramento-San Joaquin Delta Wetland Comparison

WetlandComparison

This package was used the generate the manuscript "Soil properties and sediment accretion modulate methane fluxes from restored wetlands." by Samuel D. Chamberlain et. al. This follows the R package structure adapted from Carl Boettiger's template found here: https://github.com/cboettig/template. Briefly, the /data folder contains soil and half-hourly eddy covariance files used in the analysis, the /R folder contains scripts used to process data, and the /vignettes folder contains the Markdown and bibiography files used to generate the manuscript, as well as two figure images that were not directly reproducible in R.

Figure 1 and 4 are not directly reproducible in R, but all other analyses are reproducible in this package. Figure 1 was generated in ArcMap using the soil series data downloaded from the USDA Web Soil Survey (https://websoilsurvey.sc.egov.usda.gov/) and eddy covariance flux footprints. Figure 4 was generated using a combined information theory-wavelet time series decomposition using a modification of the MATLAB ProcessNetwork Software found here: https://github.com/samdchamberlain/ProcessNetwork_Software. All other analyses in this work are reproducible from the 'manuscript.Rmd' file in the /vignettes folder, and running this file will reproduce this manuscript in its entirety.

Installation

You can install WetlandComparison from github with:

install.packages("devtools")
devtools::install_github("samdchamberlain/WetlandComparison")

How to Run

Load package into RStudio and open the 'manuscript.Rmd' within the /vignettes folder. Using RStudio, click the 'Knit' button at the top of the console and this manuscript, and analyses herein, will be re-created.

samdchamberlain/wetlandcomparison documentation built on May 30, 2019, 11:44 p.m.