Flow is more Important than Temperature in Driving Patterns of Organic Matter Storage and Stoichiometry in Stream Ecosystems

This repository contains code and data needed to reproduce the article:

Junker, JR, WF Cross, JP Benstead, AD Huryn, JM Hood, D Nelson, GM Gíslason, JS Ólafsson. Flow is more Important than Temperature in Driving Patterns of Organic Matter Storage and Stoichiometry in Stream Ecosystems. Ecosystems DOI: 10.1007/s10021-020-00585-6

Code DOI:

All analyses were done in R https://cran.r-project.org/

The file structure of this repository is:

## .
## +-- data
## |   +-- derived_data
## |   |   +-- GB_samples.rda
## |   |   +-- GB_summary.rda
## |   |   +-- j.df.rda
## |   |   +-- j.stoic_df.rda
## |   |   \-- j.summary_stoic.rda
## |   +-- ocecolors.rda
## |   \-- raw_data
## |       +-- BOM_volumes.csv
## |       +-- cutC.csv
## |       +-- DM.csv
## |       +-- jul_nutrients.csv
## |       +-- PerCN.csv
## |       +-- PerP.csv
## |       \-- stream_metadata.csv
## +-- Junker_OMstoic.Rproj
## +-- output
## +-- README.md
## +-- README.Rmd
## \-- scripts
##     +-- analysis
##     |   +-- figures.R
##     |   +-- pca-analysis.R
##     |   \-- submission_scripts
##     |       +-- bio-dist-stoic_plot.R
##     |       +-- bio-dist_plot.R
##     |       +-- community_analysis-and-figs.R
##     |       +-- compartment-stoic_figure.R
##     |       +-- figure-1.R
##     |       +-- figure-1a.R
##     |       +-- figure-1b-d.R
##     |       +-- NMDS_figure.R
##     |       +-- NMDS_script.R
##     |       +-- pca_plot.R
##     |       +-- pie_bubbles.R
##     |       +-- pool-figure_script.R
##     |       +-- Price_analysis.R
##     |       +-- Price_figures.R
##     |       +-- raw_BOM-env_figures.R
##     |       +-- raw_GB-env_figures.R
##     |       \-- RMA-regression_Scaling-figs.R
##     +-- datascript.R
##     \-- install-packages.R

The raw data consist of 7 files:

stream_metadata.csv contains stream physicochemical data such as: location, width, depth, annual temperature, and discharge summaries (e.g., median Q, max Q, etc.).

jul_nutrients.csv contains summarize dissolved nutrient values from July 2012

BOM_volumes.csv contains sample and subsample volumes from individual samples

DM.csv contains measured drymass and organic matter content calculations from individual subtypes

cutC.csv contains carbon and nitrogen concentrations for large macro primary producers (e.g., macrophytes, brophytes, etc.)

PerCN.csv contains carbon and nitrogen concentrations for non-macro BOM subtypes

PerP.csv contains phophorus concentrations for all sample subtypes