Files in reichlab/2017-2018-cdc-flu-contest
code for cdc flu contest 2017-2018

.Rbuildignore
.gitignore
.travis.yml
DESCRIPTION
NAMESPACE
R/cdcFlu20172018-package.R R/data.R R/get-partially-revised-data.R R/kcde-utils.R R/kde-prediction-utils.R R/kde-utils.R R/make_one_kde_prediction_file.R R/my_plot_weekahead.R R/sarima-utils.R R/stacking-utils.R R/utils.R README.md
data-raw/flu_data.csv
data-raw/flu_onset_baselines.csv
data-raw/region-prediction-template-EW53.csv
data-raw/region-prediction-template.csv
data-raw/state_flu_data.csv
data/flu_data.rdata
data/flu_data_final_for_prospective_predictions.rds
data/flu_data_with_backfill.rds
data/flu_onset_baselines.rdata
data/state_flu_data.rdata
inst/data-processing/create-clean-flu-data-for-test-phase-prospective-predictions.R inst/data-processing/create-clean-flu-data-state-level.R inst/data-processing/create-clean-flu-data.R inst/data-processing/create-flu-baseline-file.R inst/data-processing/save-unrevised-data.R inst/estimation/kcde/copula-estimation-step.R inst/estimation/kcde/kcde-estimation-step-np.R inst/estimation/kcde/kcde-estimation-step.R inst/estimation/kcde/kcde-np-loso-eval.R inst/estimation/kcde/kcde-vs-np-estimation-comparison-postprocessing.R inst/estimation/kcde/submit-cluster-job-kcde-estimation-step.R inst/estimation/kcde/submit-cluster-job-kcde-np-loso-eval.R inst/estimation/kde/check-2017-2018-files.R inst/estimation/kde/check-kde-predictions.R
inst/estimation/kde/checking/kde-National-2010-2011-prospective-predictions.rds
inst/estimation/kde/checking/kde-National-2011-2012-prospective-predictions.rds
inst/estimation/kde/checking/kde-National-2012-2013-prospective-predictions.rds
inst/estimation/kde/checking/kde-National-2013-2014-prospective-predictions.rds
inst/estimation/kde/checking/kde-National-2014-2015-prospective-predictions.rds
inst/estimation/kde/checking/kde-National-2015-2016-prospective-predictions.rds
inst/estimation/kde/checking/kde-Region1-2010-2011-prospective-predictions.rds
inst/estimation/kde/checking/kde-Region1-2011-2012-prospective-predictions.rds
inst/estimation/kde/checking/kde-Region1-2012-2013-prospective-predictions.rds
inst/estimation/kde/checking/kde-Region1-2013-2014-prospective-predictions.rds
inst/estimation/kde/checking/kde-Region1-2014-2015-prospective-predictions.rds
inst/estimation/kde/checking/kde-Region1-2015-2016-prospective-predictions.rds
inst/estimation/kde/checking/kde-Region10-2010-2011-prospective-predictions.rds
inst/estimation/kde/checking/kde-Region10-2011-2012-prospective-predictions.rds
inst/estimation/kde/checking/kde-Region10-2012-2013-prospective-predictions.rds
inst/estimation/kde/checking/kde-Region10-2013-2014-prospective-predictions.rds
inst/estimation/kde/checking/kde-Region10-2014-2015-prospective-predictions.rds
inst/estimation/kde/checking/kde-Region10-2015-2016-prospective-predictions.rds
inst/estimation/kde/checking/kde-Region2-2010-2011-prospective-predictions.rds
inst/estimation/kde/checking/kde-Region2-2011-2012-prospective-predictions.rds
inst/estimation/kde/checking/kde-Region2-2012-2013-prospective-predictions.rds
inst/estimation/kde/checking/kde-Region2-2013-2014-prospective-predictions.rds
inst/estimation/kde/checking/kde-Region2-2014-2015-prospective-predictions.rds
inst/estimation/kde/checking/kde-Region2-2015-2016-prospective-predictions.rds
inst/estimation/kde/checking/kde-Region3-2010-2011-prospective-predictions.rds
inst/estimation/kde/checking/kde-Region3-2011-2012-prospective-predictions.rds
inst/estimation/kde/checking/kde-Region3-2012-2013-prospective-predictions.rds
inst/estimation/kde/checking/kde-Region3-2013-2014-prospective-predictions.rds
inst/estimation/kde/checking/kde-Region3-2014-2015-prospective-predictions.rds
inst/estimation/kde/checking/kde-Region3-2015-2016-prospective-predictions.rds
inst/estimation/kde/checking/kde-Region4-2010-2011-prospective-predictions.rds
inst/estimation/kde/checking/kde-Region4-2011-2012-prospective-predictions.rds
inst/estimation/kde/checking/kde-Region4-2012-2013-prospective-predictions.rds
inst/estimation/kde/checking/kde-Region4-2013-2014-prospective-predictions.rds
inst/estimation/kde/checking/kde-Region4-2014-2015-prospective-predictions.rds
inst/estimation/kde/checking/kde-Region4-2015-2016-prospective-predictions.rds
inst/estimation/kde/checking/kde-Region5-2010-2011-prospective-predictions.rds
inst/estimation/kde/checking/kde-Region5-2011-2012-prospective-predictions.rds
inst/estimation/kde/checking/kde-Region5-2012-2013-prospective-predictions.rds
inst/estimation/kde/checking/kde-Region5-2013-2014-prospective-predictions.rds
inst/estimation/kde/checking/kde-Region5-2014-2015-prospective-predictions.rds
inst/estimation/kde/checking/kde-Region5-2015-2016-prospective-predictions.rds
inst/estimation/kde/checking/kde-Region6-2010-2011-prospective-predictions.rds
inst/estimation/kde/checking/kde-Region6-2011-2012-prospective-predictions.rds
inst/estimation/kde/checking/kde-Region6-2012-2013-prospective-predictions.rds
inst/estimation/kde/checking/kde-Region6-2013-2014-prospective-predictions.rds
inst/estimation/kde/checking/kde-Region6-2014-2015-prospective-predictions.rds
inst/estimation/kde/checking/kde-Region6-2015-2016-prospective-predictions.rds
inst/estimation/kde/checking/kde-Region7-2010-2011-prospective-predictions.rds
inst/estimation/kde/checking/kde-Region7-2011-2012-prospective-predictions.rds
inst/estimation/kde/checking/kde-Region7-2012-2013-prospective-predictions.rds
inst/estimation/kde/checking/kde-Region7-2013-2014-prospective-predictions.rds
inst/estimation/kde/checking/kde-Region7-2014-2015-prospective-predictions.rds
inst/estimation/kde/checking/kde-Region7-2015-2016-prospective-predictions.rds
inst/estimation/kde/checking/kde-Region8-2010-2011-prospective-predictions.rds
inst/estimation/kde/checking/kde-Region8-2011-2012-prospective-predictions.rds
inst/estimation/kde/checking/kde-Region8-2012-2013-prospective-predictions.rds
inst/estimation/kde/checking/kde-Region8-2013-2014-prospective-predictions.rds
inst/estimation/kde/checking/kde-Region8-2014-2015-prospective-predictions.rds
inst/estimation/kde/checking/kde-Region8-2015-2016-prospective-predictions.rds
inst/estimation/kde/checking/kde-Region9-2010-2011-prospective-predictions.rds
inst/estimation/kde/checking/kde-Region9-2011-2012-prospective-predictions.rds
inst/estimation/kde/checking/kde-Region9-2012-2013-prospective-predictions.rds
inst/estimation/kde/checking/kde-Region9-2013-2014-prospective-predictions.rds
inst/estimation/kde/checking/kde-Region9-2014-2015-prospective-predictions.rds
inst/estimation/kde/checking/kde-Region9-2015-2016-prospective-predictions.rds
inst/estimation/kde/create-kde-entry-files.R
inst/estimation/kde/fits/kde-National-fit-prospective-2010-2011.rds
inst/estimation/kde/fits/kde-National-fit-prospective-2011-2012.rds
inst/estimation/kde/fits/kde-National-fit-prospective-2012-2013.rds
inst/estimation/kde/fits/kde-National-fit-prospective-2013-2014.rds
inst/estimation/kde/fits/kde-National-fit-prospective-2014-2015.rds
inst/estimation/kde/fits/kde-National-fit-prospective-2015-2016.rds
inst/estimation/kde/fits/kde-National-fit-prospective-2016-2017.rds
inst/estimation/kde/fits/kde-National-fit-prospective-2017-2018.rds
inst/estimation/kde/fits/kde-Region1-fit-prospective-2010-2011.rds
inst/estimation/kde/fits/kde-Region1-fit-prospective-2011-2012.rds
inst/estimation/kde/fits/kde-Region1-fit-prospective-2012-2013.rds
inst/estimation/kde/fits/kde-Region1-fit-prospective-2013-2014.rds
inst/estimation/kde/fits/kde-Region1-fit-prospective-2014-2015.rds
inst/estimation/kde/fits/kde-Region1-fit-prospective-2015-2016.rds
inst/estimation/kde/fits/kde-Region1-fit-prospective-2016-2017.rds
inst/estimation/kde/fits/kde-Region1-fit-prospective-2017-2018.rds
inst/estimation/kde/fits/kde-Region10-fit-prospective-2010-2011.rds
inst/estimation/kde/fits/kde-Region10-fit-prospective-2011-2012.rds
inst/estimation/kde/fits/kde-Region10-fit-prospective-2012-2013.rds
inst/estimation/kde/fits/kde-Region10-fit-prospective-2013-2014.rds
inst/estimation/kde/fits/kde-Region10-fit-prospective-2014-2015.rds
inst/estimation/kde/fits/kde-Region10-fit-prospective-2015-2016.rds
inst/estimation/kde/fits/kde-Region10-fit-prospective-2016-2017.rds
inst/estimation/kde/fits/kde-Region10-fit-prospective-2017-2018.rds
inst/estimation/kde/fits/kde-Region2-fit-prospective-2010-2011.rds
inst/estimation/kde/fits/kde-Region2-fit-prospective-2011-2012.rds
inst/estimation/kde/fits/kde-Region2-fit-prospective-2012-2013.rds
inst/estimation/kde/fits/kde-Region2-fit-prospective-2013-2014.rds
inst/estimation/kde/fits/kde-Region2-fit-prospective-2014-2015.rds
inst/estimation/kde/fits/kde-Region2-fit-prospective-2015-2016.rds
inst/estimation/kde/fits/kde-Region2-fit-prospective-2016-2017.rds
inst/estimation/kde/fits/kde-Region2-fit-prospective-2017-2018.rds
inst/estimation/kde/fits/kde-Region3-fit-prospective-2010-2011.rds
inst/estimation/kde/fits/kde-Region3-fit-prospective-2011-2012.rds
inst/estimation/kde/fits/kde-Region3-fit-prospective-2012-2013.rds
inst/estimation/kde/fits/kde-Region3-fit-prospective-2013-2014.rds
inst/estimation/kde/fits/kde-Region3-fit-prospective-2014-2015.rds
inst/estimation/kde/fits/kde-Region3-fit-prospective-2015-2016.rds
inst/estimation/kde/fits/kde-Region3-fit-prospective-2016-2017.rds
inst/estimation/kde/fits/kde-Region3-fit-prospective-2017-2018.rds
inst/estimation/kde/fits/kde-Region4-fit-prospective-2010-2011.rds
inst/estimation/kde/fits/kde-Region4-fit-prospective-2011-2012.rds
inst/estimation/kde/fits/kde-Region4-fit-prospective-2012-2013.rds
inst/estimation/kde/fits/kde-Region4-fit-prospective-2013-2014.rds
inst/estimation/kde/fits/kde-Region4-fit-prospective-2014-2015.rds
inst/estimation/kde/fits/kde-Region4-fit-prospective-2015-2016.rds
inst/estimation/kde/fits/kde-Region4-fit-prospective-2016-2017.rds
inst/estimation/kde/fits/kde-Region4-fit-prospective-2017-2018.rds
inst/estimation/kde/fits/kde-Region5-fit-prospective-2010-2011.rds
inst/estimation/kde/fits/kde-Region5-fit-prospective-2011-2012.rds
inst/estimation/kde/fits/kde-Region5-fit-prospective-2012-2013.rds
inst/estimation/kde/fits/kde-Region5-fit-prospective-2013-2014.rds
inst/estimation/kde/fits/kde-Region5-fit-prospective-2014-2015.rds
inst/estimation/kde/fits/kde-Region5-fit-prospective-2015-2016.rds
inst/estimation/kde/fits/kde-Region5-fit-prospective-2016-2017.rds
inst/estimation/kde/fits/kde-Region5-fit-prospective-2017-2018.rds
inst/estimation/kde/fits/kde-Region6-fit-prospective-2010-2011.rds
inst/estimation/kde/fits/kde-Region6-fit-prospective-2011-2012.rds
inst/estimation/kde/fits/kde-Region6-fit-prospective-2012-2013.rds
inst/estimation/kde/fits/kde-Region6-fit-prospective-2013-2014.rds
inst/estimation/kde/fits/kde-Region6-fit-prospective-2014-2015.rds
inst/estimation/kde/fits/kde-Region6-fit-prospective-2015-2016.rds
inst/estimation/kde/fits/kde-Region6-fit-prospective-2016-2017.rds
inst/estimation/kde/fits/kde-Region6-fit-prospective-2017-2018.rds
inst/estimation/kde/fits/kde-Region7-fit-prospective-2010-2011.rds
inst/estimation/kde/fits/kde-Region7-fit-prospective-2011-2012.rds
inst/estimation/kde/fits/kde-Region7-fit-prospective-2012-2013.rds
inst/estimation/kde/fits/kde-Region7-fit-prospective-2013-2014.rds
inst/estimation/kde/fits/kde-Region7-fit-prospective-2014-2015.rds
inst/estimation/kde/fits/kde-Region7-fit-prospective-2015-2016.rds
inst/estimation/kde/fits/kde-Region7-fit-prospective-2016-2017.rds
inst/estimation/kde/fits/kde-Region7-fit-prospective-2017-2018.rds
inst/estimation/kde/fits/kde-Region8-fit-prospective-2010-2011.rds
inst/estimation/kde/fits/kde-Region8-fit-prospective-2011-2012.rds
inst/estimation/kde/fits/kde-Region8-fit-prospective-2012-2013.rds
inst/estimation/kde/fits/kde-Region8-fit-prospective-2013-2014.rds
inst/estimation/kde/fits/kde-Region8-fit-prospective-2014-2015.rds
inst/estimation/kde/fits/kde-Region8-fit-prospective-2015-2016.rds
inst/estimation/kde/fits/kde-Region8-fit-prospective-2016-2017.rds
inst/estimation/kde/fits/kde-Region8-fit-prospective-2017-2018.rds
inst/estimation/kde/fits/kde-Region9-fit-prospective-2010-2011.rds
inst/estimation/kde/fits/kde-Region9-fit-prospective-2011-2012.rds
inst/estimation/kde/fits/kde-Region9-fit-prospective-2012-2013.rds
inst/estimation/kde/fits/kde-Region9-fit-prospective-2013-2014.rds
inst/estimation/kde/fits/kde-Region9-fit-prospective-2014-2015.rds
inst/estimation/kde/fits/kde-Region9-fit-prospective-2015-2016.rds
inst/estimation/kde/fits/kde-Region9-fit-prospective-2016-2017.rds
inst/estimation/kde/fits/kde-Region9-fit-prospective-2017-2018.rds
inst/estimation/kde/kde-estimation.R inst/estimation/kde/kde-prospective-preds.R
inst/estimation/sarima-state/fits-seasonal-differencing/sarima-Alabama-seasonal_difference_TRUE-transformation_log-first_test_season_2017_2018.rds
inst/estimation/sarima-state/fits-seasonal-differencing/sarima-Alaska-seasonal_difference_TRUE-transformation_log-first_test_season_2017_2018.rds
inst/estimation/sarima-state/fits-seasonal-differencing/sarima-Arizona-seasonal_difference_TRUE-transformation_log-first_test_season_2017_2018.rds
inst/estimation/sarima-state/fits-seasonal-differencing/sarima-Arkansas-seasonal_difference_TRUE-transformation_log-first_test_season_2017_2018.rds
inst/estimation/sarima-state/fits-seasonal-differencing/sarima-California-seasonal_difference_TRUE-transformation_log-first_test_season_2017_2018.rds
inst/estimation/sarima-state/fits-seasonal-differencing/sarima-Colorado-seasonal_difference_TRUE-transformation_log-first_test_season_2017_2018.rds
inst/estimation/sarima-state/fits-seasonal-differencing/sarima-Connecticut-seasonal_difference_TRUE-transformation_log-first_test_season_2017_2018.rds
inst/estimation/sarima-state/fits-seasonal-differencing/sarima-Delaware-seasonal_difference_TRUE-transformation_log-first_test_season_2017_2018.rds
inst/estimation/sarima-state/fits-seasonal-differencing/sarima-District_of_Columbia-seasonal_difference_TRUE-transformation_log-first_test_season_2017_2018.rds
inst/estimation/sarima-state/fits-seasonal-differencing/sarima-Georgia-seasonal_difference_TRUE-transformation_log-first_test_season_2017_2018.rds
inst/estimation/sarima-state/fits-seasonal-differencing/sarima-Hawaii-seasonal_difference_TRUE-transformation_log-first_test_season_2017_2018.rds
inst/estimation/sarima-state/fits-seasonal-differencing/sarima-Idaho-seasonal_difference_TRUE-transformation_log-first_test_season_2017_2018.rds
inst/estimation/sarima-state/fits-seasonal-differencing/sarima-Illinois-seasonal_difference_TRUE-transformation_log-first_test_season_2017_2018.rds
inst/estimation/sarima-state/fits-seasonal-differencing/sarima-Indiana-seasonal_difference_TRUE-transformation_log-first_test_season_2017_2018.rds
inst/estimation/sarima-state/fits-seasonal-differencing/sarima-Iowa-seasonal_difference_TRUE-transformation_log-first_test_season_2017_2018.rds
inst/estimation/sarima-state/fits-seasonal-differencing/sarima-Kansas-seasonal_difference_TRUE-transformation_log-first_test_season_2017_2018.rds
inst/estimation/sarima-state/fits-seasonal-differencing/sarima-Kentucky-seasonal_difference_TRUE-transformation_log-first_test_season_2017_2018.rds
inst/estimation/sarima-state/fits-seasonal-differencing/sarima-Maine-seasonal_difference_TRUE-transformation_log-first_test_season_2017_2018.rds
inst/estimation/sarima-state/fits-seasonal-differencing/sarima-Maryland-seasonal_difference_TRUE-transformation_log-first_test_season_2017_2018.rds
inst/estimation/sarima-state/fits-seasonal-differencing/sarima-Massachusetts-seasonal_difference_TRUE-transformation_log-first_test_season_2017_2018.rds
inst/estimation/sarima-state/fits-seasonal-differencing/sarima-Michigan-seasonal_difference_TRUE-transformation_log-first_test_season_2017_2018.rds
inst/estimation/sarima-state/fits-seasonal-differencing/sarima-Minnesota-seasonal_difference_TRUE-transformation_log-first_test_season_2017_2018.rds
inst/estimation/sarima-state/fits-seasonal-differencing/sarima-Mississippi-seasonal_difference_TRUE-transformation_log-first_test_season_2017_2018.rds
inst/estimation/sarima-state/fits-seasonal-differencing/sarima-Missouri-seasonal_difference_TRUE-transformation_log-first_test_season_2017_2018.rds
inst/estimation/sarima-state/fits-seasonal-differencing/sarima-Montana-seasonal_difference_TRUE-transformation_log-first_test_season_2017_2018.rds
inst/estimation/sarima-state/fits-seasonal-differencing/sarima-Nebraska-seasonal_difference_TRUE-transformation_log-first_test_season_2017_2018.rds
inst/estimation/sarima-state/fits-seasonal-differencing/sarima-Nevada-seasonal_difference_TRUE-transformation_log-first_test_season_2017_2018.rds
inst/estimation/sarima-state/fits-seasonal-differencing/sarima-New_Hampshire-seasonal_difference_TRUE-transformation_log-first_test_season_2017_2018.rds
inst/estimation/sarima-state/fits-seasonal-differencing/sarima-New_Jersey-seasonal_difference_TRUE-transformation_log-first_test_season_2017_2018.rds
inst/estimation/sarima-state/fits-seasonal-differencing/sarima-New_Mexico-seasonal_difference_TRUE-transformation_log-first_test_season_2017_2018.rds
inst/estimation/sarima-state/fits-seasonal-differencing/sarima-New_York-seasonal_difference_TRUE-transformation_log-first_test_season_2017_2018.rds
inst/estimation/sarima-state/fits-seasonal-differencing/sarima-North_Carolina-seasonal_difference_TRUE-transformation_log-first_test_season_2017_2018.rds
inst/estimation/sarima-state/fits-seasonal-differencing/sarima-North_Dakota-seasonal_difference_TRUE-transformation_log-first_test_season_2017_2018.rds
inst/estimation/sarima-state/fits-seasonal-differencing/sarima-Ohio-seasonal_difference_TRUE-transformation_log-first_test_season_2017_2018.rds
inst/estimation/sarima-state/fits-seasonal-differencing/sarima-Oklahoma-seasonal_difference_TRUE-transformation_log-first_test_season_2017_2018.rds
inst/estimation/sarima-state/fits-seasonal-differencing/sarima-Oregon-seasonal_difference_TRUE-transformation_log-first_test_season_2017_2018.rds
inst/estimation/sarima-state/fits-seasonal-differencing/sarima-Pennsylvania-seasonal_difference_TRUE-transformation_log-first_test_season_2017_2018.rds
inst/estimation/sarima-state/fits-seasonal-differencing/sarima-Puerto_Rico-seasonal_difference_TRUE-transformation_log-first_test_season_2017_2018.rds
inst/estimation/sarima-state/fits-seasonal-differencing/sarima-Rhode_Island-seasonal_difference_TRUE-transformation_log-first_test_season_2017_2018.rds
inst/estimation/sarima-state/fits-seasonal-differencing/sarima-South_Carolina-seasonal_difference_TRUE-transformation_log-first_test_season_2017_2018.rds
inst/estimation/sarima-state/fits-seasonal-differencing/sarima-South_Dakota-seasonal_difference_TRUE-transformation_log-first_test_season_2017_2018.rds
inst/estimation/sarima-state/fits-seasonal-differencing/sarima-Tennessee-seasonal_difference_TRUE-transformation_log-first_test_season_2017_2018.rds
inst/estimation/sarima-state/fits-seasonal-differencing/sarima-Texas-seasonal_difference_TRUE-transformation_log-first_test_season_2017_2018.rds
inst/estimation/sarima-state/fits-seasonal-differencing/sarima-Utah-seasonal_difference_TRUE-transformation_log-first_test_season_2017_2018.rds
inst/estimation/sarima-state/fits-seasonal-differencing/sarima-Vermont-seasonal_difference_TRUE-transformation_log-first_test_season_2017_2018.rds
inst/estimation/sarima-state/fits-seasonal-differencing/sarima-Virgin_Islands-seasonal_difference_TRUE-transformation_log-first_test_season_2017_2018.rds
inst/estimation/sarima-state/fits-seasonal-differencing/sarima-Virginia-seasonal_difference_TRUE-transformation_log-first_test_season_2017_2018.rds
inst/estimation/sarima-state/fits-seasonal-differencing/sarima-Washington-seasonal_difference_TRUE-transformation_log-first_test_season_2017_2018.rds
inst/estimation/sarima-state/fits-seasonal-differencing/sarima-West_Virginia-seasonal_difference_TRUE-transformation_log-first_test_season_2017_2018.rds
inst/estimation/sarima-state/fits-seasonal-differencing/sarima-Wisconsin-seasonal_difference_TRUE-transformation_log-first_test_season_2017_2018.rds
inst/estimation/sarima-state/fits-seasonal-differencing/sarima-Wyoming-seasonal_difference_TRUE-transformation_log-first_test_season_2017_2018.rds
inst/estimation/sarima-state/sarima-state-estimation-loso.R
inst/estimation/sarima/fits-no-seasonal-differencing/sarima-National-seasonal_difference_FALSE-transformation_log-first_test_season_2010_2011.rds
inst/estimation/sarima/fits-no-seasonal-differencing/sarima-National-seasonal_difference_FALSE-transformation_log-first_test_season_2011_2012.rds
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inst/submissions/sarima_seasonal_difference_FALSE-region/metadata.txt
inst/submissions/sarima_seasonal_difference_TRUE-region-plots/2017-43-KOT-sarima_seasonal_difference_TRUE-plots.pdf inst/submissions/sarima_seasonal_difference_TRUE-region-plots/2017-44-KOT-sarima_seasonal_difference_TRUE-plots.pdf inst/submissions/sarima_seasonal_difference_TRUE-region-plots/2017-45-KOT-sarima_seasonal_difference_TRUE-plots.pdf inst/submissions/sarima_seasonal_difference_TRUE-region-plots/2017-46-KOT-sarima_seasonal_difference_TRUE-plots.pdf inst/submissions/sarima_seasonal_difference_TRUE-region-plots/2017-47-KOT-sarima_seasonal_difference_TRUE-plots.pdf inst/submissions/sarima_seasonal_difference_TRUE-region-plots/2017-48-KOT-sarima_seasonal_difference_TRUE-plots.pdf inst/submissions/sarima_seasonal_difference_TRUE-region-plots/2017-49-KOT-sarima_seasonal_difference_TRUE-plots.pdf inst/submissions/sarima_seasonal_difference_TRUE-region-plots/2017-50-KOT-sarima_seasonal_difference_TRUE-plots.pdf inst/submissions/sarima_seasonal_difference_TRUE-region-plots/2017-51-KOT-sarima_seasonal_difference_TRUE-plots.pdf inst/submissions/sarima_seasonal_difference_TRUE-region-plots/2017-52-KOT-sarima_seasonal_difference_TRUE-plots.pdf inst/submissions/sarima_seasonal_difference_TRUE-region-plots/2018-01-KOT-sarima_seasonal_difference_TRUE-plots.pdf inst/submissions/sarima_seasonal_difference_TRUE-region-plots/2018-02-KOT-sarima_seasonal_difference_TRUE-plots.pdf inst/submissions/sarima_seasonal_difference_TRUE-region-plots/2018-03-KOT-sarima_seasonal_difference_TRUE-plots.pdf inst/submissions/sarima_seasonal_difference_TRUE-region-plots/2018-04-KOT-sarima_seasonal_difference_TRUE-plots.pdf inst/submissions/sarima_seasonal_difference_TRUE-region-plots/2018-05-KOT-sarima_seasonal_difference_TRUE-plots.pdf inst/submissions/sarima_seasonal_difference_TRUE-region-plots/2018-06-KOT-sarima_seasonal_difference_TRUE-plots.pdf inst/submissions/sarima_seasonal_difference_TRUE-region-plots/2018-07-KOT-sarima_seasonal_difference_TRUE-plots.pdf inst/submissions/sarima_seasonal_difference_TRUE-region-plots/2018-08-KOT-sarima_seasonal_difference_TRUE-plots.pdf inst/submissions/sarima_seasonal_difference_TRUE-region-plots/2018-09-KOT-sarima_seasonal_difference_TRUE-plots.pdf inst/submissions/sarima_seasonal_difference_TRUE-region-plots/2018-10-KOT-sarima_seasonal_difference_TRUE-plots.pdf inst/submissions/sarima_seasonal_difference_TRUE-region-plots/2018-11-KOT-sarima_seasonal_difference_TRUE-plots.pdf inst/submissions/sarima_seasonal_difference_TRUE-region-plots/2018-12-KOT-sarima_seasonal_difference_TRUE-plots.pdf inst/submissions/sarima_seasonal_difference_TRUE-region-plots/2018-13-KOT-sarima_seasonal_difference_TRUE-plots.pdf inst/submissions/sarima_seasonal_difference_TRUE-region-plots/2018-14-KOT-sarima_seasonal_difference_TRUE-plots.pdf inst/submissions/sarima_seasonal_difference_TRUE-region-plots/2018-15-KOT-sarima_seasonal_difference_TRUE-plots.pdf inst/submissions/sarima_seasonal_difference_TRUE-region-plots/2018-16-KOT-sarima_seasonal_difference_TRUE-plots.pdf inst/submissions/sarima_seasonal_difference_TRUE-region-plots/2018-17-KOT-sarima_seasonal_difference_TRUE-plots.pdf inst/submissions/sarima_seasonal_difference_TRUE-region-plots/2018-18-KOT-sarima_seasonal_difference_TRUE-plots.pdf
inst/submissions/sarima_seasonal_difference_TRUE-region/EW01-2018-ReichLab_sarima_seasonal_difference_TRUE.csv
inst/submissions/sarima_seasonal_difference_TRUE-region/EW02-2018-ReichLab_sarima_seasonal_difference_TRUE.csv
inst/submissions/sarima_seasonal_difference_TRUE-region/EW03-2018-ReichLab_sarima_seasonal_difference_TRUE.csv
inst/submissions/sarima_seasonal_difference_TRUE-region/EW04-2018-ReichLab_sarima_seasonal_difference_TRUE.csv
inst/submissions/sarima_seasonal_difference_TRUE-region/EW05-2018-ReichLab_sarima_seasonal_difference_TRUE.csv
inst/submissions/sarima_seasonal_difference_TRUE-region/EW06-2018-ReichLab_sarima_seasonal_difference_TRUE.csv
inst/submissions/sarima_seasonal_difference_TRUE-region/EW07-2018-ReichLab_sarima_seasonal_difference_TRUE.csv
inst/submissions/sarima_seasonal_difference_TRUE-region/EW08-2018-ReichLab_sarima_seasonal_difference_TRUE.csv
inst/submissions/sarima_seasonal_difference_TRUE-region/EW09-2018-ReichLab_sarima_seasonal_difference_TRUE.csv
inst/submissions/sarima_seasonal_difference_TRUE-region/EW10-2018-ReichLab_sarima_seasonal_difference_TRUE.csv
inst/submissions/sarima_seasonal_difference_TRUE-region/EW11-2018-ReichLab_sarima_seasonal_difference_TRUE.csv
inst/submissions/sarima_seasonal_difference_TRUE-region/EW12-2018-ReichLab_sarima_seasonal_difference_TRUE.csv
inst/submissions/sarima_seasonal_difference_TRUE-region/EW13-2018-ReichLab_sarima_seasonal_difference_TRUE.csv
inst/submissions/sarima_seasonal_difference_TRUE-region/EW14-2018-ReichLab_sarima_seasonal_difference_TRUE.csv
inst/submissions/sarima_seasonal_difference_TRUE-region/EW15-2018-ReichLab_sarima_seasonal_difference_TRUE.csv
inst/submissions/sarima_seasonal_difference_TRUE-region/EW16-2018-ReichLab_sarima_seasonal_difference_TRUE.csv
inst/submissions/sarima_seasonal_difference_TRUE-region/EW17-2018-ReichLab_sarima_seasonal_difference_TRUE.csv
inst/submissions/sarima_seasonal_difference_TRUE-region/EW18-2018-ReichLab_sarima_seasonal_difference_TRUE.csv
inst/submissions/sarima_seasonal_difference_TRUE-region/EW43-2017-ReichLab_sarima_seasonal_difference_TRUE.csv
inst/submissions/sarima_seasonal_difference_TRUE-region/EW44-2017-ReichLab_sarima_seasonal_difference_TRUE.csv
inst/submissions/sarima_seasonal_difference_TRUE-region/EW45-2017-ReichLab_sarima_seasonal_difference_TRUE.csv
inst/submissions/sarima_seasonal_difference_TRUE-region/EW46-2017-ReichLab_sarima_seasonal_difference_TRUE.csv
inst/submissions/sarima_seasonal_difference_TRUE-region/EW47-2017-ReichLab_sarima_seasonal_difference_TRUE.csv
inst/submissions/sarima_seasonal_difference_TRUE-region/EW48-2017-ReichLab_sarima_seasonal_difference_TRUE.csv
inst/submissions/sarima_seasonal_difference_TRUE-region/EW49-2017-ReichLab_sarima_seasonal_difference_TRUE.csv
inst/submissions/sarima_seasonal_difference_TRUE-region/EW50-2017-ReichLab_sarima_seasonal_difference_TRUE.csv
inst/submissions/sarima_seasonal_difference_TRUE-region/EW51-2017-ReichLab_sarima_seasonal_difference_TRUE.csv
inst/submissions/sarima_seasonal_difference_TRUE-region/EW52-2017-ReichLab_sarima_seasonal_difference_TRUE.csv
inst/submissions/sarima_seasonal_difference_TRUE-region/metadata.txt
man/assemble_predictions.Rd man/assemble_stacking_inputs.Rd man/calc_median_from_binned_probs.Rd man/cdcFlu20172018.Rd man/compute_competition_log_score.Rd man/download_and_preprocess_flu_data.Rd man/download_and_preprocess_state_flu_data.Rd man/fit_kde_log_peak_week_inc.Rd man/fit_kde_onset_week.Rd man/fit_kde_peak_week.Rd man/fit_kde_weekly_inc.Rd man/fit_kernel_smoothed_stacked_model_fixed_bw.Rd man/fit_region_kdes.Rd man/fit_region_sarima.Rd man/fit_stacked_model.Rd man/fit_unregularized_stacked_model.Rd man/flu_data.Rd man/flu_onset_baselines.Rd man/get_inc_bin.Rd man/get_initial_rng_substream.Rd man/get_log_scores_via_direct_simulation.Rd man/get_log_scores_via_trajectory_simulation.Rd man/get_num_MMWR_weeks_in_first_season_year.Rd man/get_num_MMWR_weeks_in_year.Rd man/get_observed_seasonal_quantities.Rd man/get_official_observed_seasonal_quantities.Rd man/get_onset_baseline.Rd man/get_onset_week.Rd man/get_partially_revised_ilinet.Rd man/get_rng_substream.Rd man/get_submission_one_region_via_trajectory_simulation.Rd man/get_submission_via_trajectory_simulation.Rd man/logspace_add.Rd man/logspace_sub.Rd man/logspace_sub_matrix_rows.Rd man/logspace_sum.Rd man/logspace_sum_matrix_rows.Rd man/make_one_kde_prediction_file.Rd man/make_predictions_dataframe.Rd man/make_predictions_plots.Rd man/my_plot_weekahead.Rd man/predict_kde_log_peak_week_inc.Rd man/predict_kde_log_weekly_inc.Rd man/predict_kde_onset_week.Rd man/predict_kde_peak_week.Rd man/predict_region_kde.Rd man/sample_predictive_trajectories_arima.Rd man/sample_predictive_trajectories_arima_wrapper.Rd man/season_week_to_year_week.Rd man/simulate_trajectories_kcde.Rd man/weighted_combine_predictions.Rd man/year_week_to_season_week.Rd
src/Makevars
src/Makevars.win
src/utility.c
src/utility.h
travis-push.sh
reichlab/2017-2018-cdc-flu-contest documentation built on May 15, 2018, 9:32 p.m.