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SugarKelpDEB

This repository contains code associated with the manuscript Venolia et al. (in press). Any questions about this code or data should be directed towards Celeste Venolia (celestevenolia@gmail.com) and Austin Humphries (humphries@uri.edu).

Code files key:

KelpDEB_Run.R: The runfile for the Kelp DEB model which contains most of the plot codes.

KelpDEB_model.R: The Kelp DEB model turned into a function using the R package deSolve.

SolveR_R.R: The Newton-Raphson solver for the net specific growth rate (r) in the Kelp DEB model.

Photosynthesis_Calibration.R: Function code used to calibrate the photosynthesis parameters for the Kelp DEB model.

N_uptake_Calibration.R: Function code used to calibrate the N parameters for the Kelp DEB model.

SensitivityAnalyses_FME.R: Function code and run code for sensitivity analysis of the Kelp DEB parameters using the R package FME.

Field data key:

Dredge_Y1_hobo.csv: Temperature data for Dredge (Pt Judith Pond S) in 2017-2018

Dredge_Y2_HoboTempLight.csv: Temperature data for Dredge (Pt Judith Pond S) in 2018-2019

RomePoint_Y1_hobotemp.csv: Temperature data for Rome Pt (Narragansett Bay S) in 2017-2018

RomePt_Y2_HoboTempLight.csv: Temperature data for Rome Pt (Narragansett Bay S) in 2018-2019

Sled_Y1_TempLogger2.csv: Temperature data for Sled (Pt Judith Pond N) in 2017-2018

Sled_Y2_HoboLightTemp.csv: Temperature data for Sled (Pt Judith Pond N) in 2018-2019

WaterSampleAnalysis2Y1.csv: Nitrate and nitrite concentration from all sites in 2017-2018

WaterSamplesY2.csv: Nitrate and nitrite concentration from all sites in 2018-2019

Wickford_Y1_hobo.csv: Temperature data for Wickford (Narragansett Bay N) in 2017-2018

Wickford_Y2_HoboLightTemp.csv: Temperature data for Wickford (Narragansett Bay N) in 2018-2019

Year1kelpdata.csv: Kelp blade length growth from all sites in 2017-2018

Year2kelpdata.csv: Kelp blade length growth from all sites in 2018-2019

Literature data key: for references see Venolia et al. (in press)

BrentonPoint_Segarra2002CarbonData.csv: Dissolved inorganic carbon concentration used for Narragansett Bay sites (Segarra, 2002)

EspinozaChapman1983_Nuptake_9C_StMargaretsBay.csv: Nitrate uptake data for kelp from St Margarets Bay with an experimental temperature of 9 degrees C from Espinoza and Chapman (1983)

EspinozaChapman1983_Nuptake_18C_StMargaretsBay.csv: Nitrate uptake data for kelp from St Margarets Bay with an experimental temperature of 18 degrees C from Espinoza and Chapman (1983)

Johansson2002.csv: Oxygen production rate for kelp from Johansson and Snoeijs (2002)

Ninigret_EPA_DIC.csv: Dissolved inorganic carbon concentration used for Pt Judith sites (J. Grear, unpublished data)

NOAASurfaceIrradiance.csv: radiative forcing from the North American Regional Reanalysis (Mesinger et al., 2006) used to estimate photosynthetically active radiation

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