Files in jmzobitz/SoilModeling
.DS_Store
.Rbuildignore
.gitignore
DESCRIPTION
NAMESPACE
R/arrhenius.R
R/dead_soil.R
R/hello.R
R/initialize.R
R/likelihood.R
R/mcmc_treatment.R
R/metropolis_chain.R
R/microbes.R
R/prior.R
R/run_MCMC.R
R/sample_parameters.R
R/taylor_plot.R
SoilModeling.Rproj
code-graveyard/empirical-tests.R
code-graveyard/enzyme-analysis-old.R
code-graveyard/linear-test-functions.R
code-graveyard/linear-test.R
data-process/01-rapid-process.R
data-process/02-microbe-process.R
data-process/03-enzyme-process.R
data-process/04-data-prepare.R
data-process/05-niwot_data_process.R
data-process/06-mcmc-defaults.R
data-process/08-niwot_forcing.R
data-process/data-process.txt
data-raw/.DS_Store
data-raw/HighPark_BGCpools_MASTER_README.txt
data-raw/HighPark_BGCpools_MASTER_r.csv
data-raw/MASTERPLOT_DISTURBANCE_INFO.csv
data-raw/MASTERPLOT_DISTURBANCE_INFO_README.txt
data-raw/MicrobialExoEnzymeActivities_COMASTER_README.csv
data-raw/MicrobialExoEnzymeActivities_COMASTER_README.txt
data-raw/NOTES ON PLOT AND DISTURBANCE CODES.txt
data-raw/PyrolysisAllSitesRelativeProportions_MASTER.csv
data-raw/PyrolysisAllSitesRelativeProportions_MASTER_README.txt
data-raw/RAPD2013_MasterFluxesREADME.txt
data-raw/RAPID2013_MasterFluxes.csv
data-raw/ameriflux_data_ver.2018.11.28/climate_1998_ver.2018.11.28.dat
data-raw/ameriflux_data_ver.2018.11.28/climate_1999_ver.2018.11.28.dat
data-raw/ameriflux_data_ver.2018.11.28/climate_2000_ver.2018.11.28.dat
data-raw/ameriflux_data_ver.2018.11.28/climate_2001_ver.2018.11.28.dat
data-raw/ameriflux_data_ver.2018.11.28/climate_2002_ver.2018.11.28.dat
data-raw/ameriflux_data_ver.2018.11.28/climate_2003_ver.2018.11.28.dat
data-raw/ameriflux_data_ver.2018.11.28/climate_2004_ver.2018.11.28.dat
data-raw/ameriflux_data_ver.2018.11.28/climate_2005_ver.2018.11.28.dat
data-raw/ameriflux_data_ver.2018.11.28/climate_2006_ver.2018.11.28.dat
data-raw/ameriflux_data_ver.2018.11.28/climate_2007_ver.2018.11.28.dat
data-raw/ameriflux_data_ver.2018.11.28/climate_2008_ver.2018.11.28.dat
data-raw/ameriflux_data_ver.2018.11.28/climate_2009_ver.2018.11.28.dat
data-raw/ameriflux_data_ver.2018.11.28/climate_2010_ver.2018.11.28.dat
data-raw/ameriflux_data_ver.2018.11.28/climate_2011_ver.2018.11.28.dat
data-raw/ameriflux_data_ver.2018.11.28/climate_2012_ver.2018.11.28.dat
data-raw/ameriflux_data_ver.2018.11.28/climate_2013_ver.2018.11.28.dat
data-raw/ameriflux_data_ver.2018.11.28/climate_2014_ver.2018.11.28.dat
data-raw/ameriflux_data_ver.2018.11.28/climate_2015_ver.2018.11.28.dat
data-raw/ameriflux_data_ver.2018.11.28/climate_2016_ver.2018.11.28.dat
data-raw/ameriflux_data_ver.2018.11.28/climate_2017_ver.2018.11.28.dat
data-raw/ameriflux_data_ver.2018.11.28/climate_flags_1998_ver.2018.11.28.dat
data-raw/ameriflux_data_ver.2018.11.28/climate_flags_1999_ver.2018.11.28.dat
data-raw/ameriflux_data_ver.2018.11.28/climate_flags_2000_ver.2018.11.28.dat
data-raw/ameriflux_data_ver.2018.11.28/climate_flags_2001_ver.2018.11.28.dat
data-raw/ameriflux_data_ver.2018.11.28/climate_flags_2002_ver.2018.11.28.dat
data-raw/ameriflux_data_ver.2018.11.28/climate_flags_2003_ver.2018.11.28.dat
data-raw/ameriflux_data_ver.2018.11.28/climate_flags_2004_ver.2018.11.28.dat
data-raw/ameriflux_data_ver.2018.11.28/climate_flags_2005_ver.2018.11.28.dat
data-raw/ameriflux_data_ver.2018.11.28/climate_flags_2006_ver.2018.11.28.dat
data-raw/ameriflux_data_ver.2018.11.28/climate_flags_2007_ver.2018.11.28.dat
data-raw/ameriflux_data_ver.2018.11.28/climate_flags_2008_ver.2018.11.28.dat
data-raw/ameriflux_data_ver.2018.11.28/climate_flags_2009_ver.2018.11.28.dat
data-raw/ameriflux_data_ver.2018.11.28/climate_flags_2010_ver.2018.11.28.dat
data-raw/ameriflux_data_ver.2018.11.28/climate_flags_2011_ver.2018.11.28.dat
data-raw/ameriflux_data_ver.2018.11.28/climate_flags_2012_ver.2018.11.28.dat
data-raw/ameriflux_data_ver.2018.11.28/climate_flags_2013_ver.2018.11.28.dat
data-raw/ameriflux_data_ver.2018.11.28/climate_flags_2014_ver.2018.11.28.dat
data-raw/ameriflux_data_ver.2018.11.28/climate_flags_2015_ver.2018.11.28.dat
data-raw/ameriflux_data_ver.2018.11.28/climate_flags_2016_ver.2018.11.28.dat
data-raw/ameriflux_data_ver.2018.11.28/climate_flags_2017_ver.2018.11.28.dat
data-raw/ameriflux_data_ver.2018.11.28/flux_1998_ver.2018.11.28.dat
data-raw/ameriflux_data_ver.2018.11.28/flux_1999_ver.2018.11.28.dat
data-raw/ameriflux_data_ver.2018.11.28/flux_2000_ver.2018.11.28.dat
data-raw/ameriflux_data_ver.2018.11.28/flux_2001_ver.2018.11.28.dat
data-raw/ameriflux_data_ver.2018.11.28/flux_2002_ver.2018.11.28.dat
data-raw/ameriflux_data_ver.2018.11.28/flux_2003_ver.2018.11.28.dat
data-raw/ameriflux_data_ver.2018.11.28/flux_2004_ver.2018.11.28.dat
data-raw/ameriflux_data_ver.2018.11.28/flux_2005_ver.2018.11.28.dat
data-raw/ameriflux_data_ver.2018.11.28/flux_2006_ver.2018.11.28.dat
data-raw/ameriflux_data_ver.2018.11.28/flux_2007_ver.2018.11.28.dat
data-raw/ameriflux_data_ver.2018.11.28/flux_2008_ver.2018.11.28.dat
data-raw/ameriflux_data_ver.2018.11.28/flux_2009_ver.2018.11.28.dat
data-raw/ameriflux_data_ver.2018.11.28/flux_2010_ver.2018.11.28.dat
data-raw/ameriflux_data_ver.2018.11.28/flux_2011_ver.2018.11.28.dat
data-raw/ameriflux_data_ver.2018.11.28/flux_2012_ver.2018.11.28.dat
data-raw/ameriflux_data_ver.2018.11.28/flux_2013_ver.2018.11.28.dat
data-raw/ameriflux_data_ver.2018.11.28/flux_2014_ver.2018.11.28.dat
data-raw/ameriflux_data_ver.2018.11.28/flux_2015_ver.2018.11.28.dat
data-raw/ameriflux_data_ver.2018.11.28/flux_2016_ver.2018.11.28.dat
data-raw/ameriflux_data_ver.2018.11.28/flux_2017_ver.2018.11.28.dat
data-raw/ameriflux_data_ver.2018.11.28/flux_flags_1998_ver.2018.11.28.dat
data-raw/ameriflux_data_ver.2018.11.28/flux_flags_1999_ver.2018.11.28.dat
data-raw/ameriflux_data_ver.2018.11.28/flux_flags_2000_ver.2018.11.28.dat
data-raw/ameriflux_data_ver.2018.11.28/flux_flags_2001_ver.2018.11.28.dat
data-raw/ameriflux_data_ver.2018.11.28/flux_flags_2002_ver.2018.11.28.dat
data-raw/ameriflux_data_ver.2018.11.28/flux_flags_2003_ver.2018.11.28.dat
data-raw/ameriflux_data_ver.2018.11.28/flux_flags_2004_ver.2018.11.28.dat
data-raw/ameriflux_data_ver.2018.11.28/flux_flags_2005_ver.2018.11.28.dat
data-raw/ameriflux_data_ver.2018.11.28/flux_flags_2006_ver.2018.11.28.dat
data-raw/ameriflux_data_ver.2018.11.28/flux_flags_2007_ver.2018.11.28.dat
data-raw/ameriflux_data_ver.2018.11.28/flux_flags_2008_ver.2018.11.28.dat
data-raw/ameriflux_data_ver.2018.11.28/flux_flags_2009_ver.2018.11.28.dat
data-raw/ameriflux_data_ver.2018.11.28/flux_flags_2010_ver.2018.11.28.dat
data-raw/ameriflux_data_ver.2018.11.28/flux_flags_2011_ver.2018.11.28.dat
data-raw/ameriflux_data_ver.2018.11.28/flux_flags_2012_ver.2018.11.28.dat
data-raw/ameriflux_data_ver.2018.11.28/flux_flags_2013_ver.2018.11.28.dat
data-raw/ameriflux_data_ver.2018.11.28/flux_flags_2014_ver.2018.11.28.dat
data-raw/ameriflux_data_ver.2018.11.28/flux_flags_2015_ver.2018.11.28.dat
data-raw/ameriflux_data_ver.2018.11.28/flux_flags_2016_ver.2018.11.28.dat
data-raw/ameriflux_data_ver.2018.11.28/flux_flags_2017_ver.2018.11.28.dat
data/Q10_temperature.rda
data/enzyme_proportion.rda
data/flux_data.rda
data/mcmc_defaults.rda
data/mcmc_superfast.rda
data/microbe_data.rda
data/niwot_average.rda
data/niwot_forcing_data.rda
data/niwot_forcing_girdle.rda
data/niwot_forcing_normal.rda
data/rapid_data.rda
data/split_data_weighted.rda
data/treatment_key.rda
data/weighted_Q10.rda
forcing-process/09-forcing_compute.R
man/arrhenius.Rd
man/dead_soil.Rd
man/hello.Rd
man/initialize.Rd
man/likelihood.Rd
man/mcmc_treatment.Rd
man/metropolis_chain.Rd
man/microbes.Rd
man/prior.Rd
man/run_MCMC.Rd
man/sample_parameters.Rd
man/taylor_plot.Rd
manuscript-figures/arrhenius-histograms.png
manuscript-figures/dead_soil-histograms.png
manuscript-figures/microbes-histograms.png
manuscript-figures/q10EnzymeSummary.png
manuscript-figures/q10ProportionEnzymeSummary.png
manuscript-figures/taylor-plot.png
mcmc-log-files/arrhenius-1.out
mcmc-log-files/arrhenius-2.out
mcmc-log-files/arrhenius-3.out
mcmc-log-files/arrhenius-4.out
mcmc-log-files/dead_soil-1.out
mcmc-log-files/dead_soil-2.out
mcmc-log-files/dead_soil-3.out
mcmc-log-files/dead_soil-4.out
mcmc-log-files/microbes-1.out
mcmc-log-files/microbes-2.out
mcmc-log-files/microbes-3.out
mcmc-log-files/microbes-4.out
mcmc-process/01-models_process.R
mcmc-process/02-model-param-process.R
mcmc-process/03-modeled-rSoil-compute.R
mcmc-process/04-mean-ll-compute.R
mcmc-process/05-empirical-model-compute.R
mcmc-process/dead_soil_process.R
mcmc-results/arrhenius-1.Rda
mcmc-results/arrhenius-2.Rda
mcmc-results/arrhenius-3.Rda
mcmc-results/arrhenius-4.Rda
mcmc-results/dead_soil-1.Rda
mcmc-results/dead_soil-2.Rda
mcmc-results/dead_soil-3.Rda
mcmc-results/dead_soil-4.Rda
mcmc-results/microbes-1.Rda
mcmc-results/microbes-2.Rda
mcmc-results/microbes-3.Rda
mcmc-results/microbes-4.Rda
mcmc-results/model-parameter-results.Rda
mcmc-results/modeled-rSoil-results.Rda
param-defaults/arrhenius-param.csv
param-defaults/dead_soil-param.csv
param-defaults/linear-param.csv
param-defaults/microbes-param.csv
param-defaults/quality-param.csv
plot-process/enzyme-activity-plot.R
plot-process/parameter_distribution.R
plot-process/q10-plot.R
plot-process/taylor-plot.R
