Files in USEPA/LakeTrophicModelling
Package to reproduce Hollister et al. (2015) Modeling Lake Trophic State: A Randrom Forest Approach.
.Rbuildignore
.gitignore
.travis.yml
DESCRIPTION
LakeTrophicModelling.Rproj
NAMESPACE
R/LakeTrophicModelling-package.r
R/class_prob_rf.R
R/condAccuracy.R
R/crossval_rf.R
R/density_plot.R
R/ecdf_ks_ci.R
R/ecor_map.R
R/getCyanoAbund.R
R/getLakeIDs.R
R/importancePlot.R
R/iterVarSelRF.R
R/multiplot.R
R/nlaMap.R
R/partial_plot.R
R/plotCdf.R
R/pred_prob_map.R
R/prob_cdf.R
R/runRandomForest.R
R/scatterPlot.R
R/sumTable.R
R/table_to_df.R
R/ts_prob_map.R
R/varImportance.R
R/varsel_plot.R
R/varsel_regression_rf.R
README.md
data/LakeTrophicModelling.rda
inst/doc/.gitignore
inst/doc/manuscript.pdf
inst/extdata/all_rf_out.csv
inst/extdata/data_def.csv
inst/extdata/gis_rf_out.csv
inst/extdata/ltmData.csv
inst/extdata/nla_lakes.dbf
inst/extdata/nla_lakes.prj
inst/extdata/nla_lakes.shp
inst/extdata/nla_lakes.shx
inst/extdata/process_wsa.R
inst/extdata/wsa9_low48.dbf
inst/extdata/wsa9_low48.prj
inst/extdata/wsa9_low48.shp
inst/extdata/wsa9_low48.shx
man/class_prob_rf.Rd
man/condAccuracy.Rd
man/crossval_rf.Rd
man/density_plot.Rd
man/ecdf_ks_ci.Rd
man/ecor_map.Rd
man/getCyanoAbund.Rd
man/getLakeIDs.Rd
man/importancePlot.Rd
man/iterVarSelRF.Rd
man/ltm.Rd
man/make_ts_map.Rd
man/multiplot.Rd
man/nlaMap.Rd
man/partial_plot.Rd
man/plotCdf.Rd
man/pred_prob_map.Rd
man/prob_cdf.Rd
man/runRandomForest.Rd
man/scatterPlot.Rd
man/sumTable.Rd
man/table_to_df.Rd
man/ts_prob_map.Rd
man/varImportance.Rd
man/varsel_plot.Rd
man/varsel_regression_rf.Rd
test.txt
vignettes/components/LakeTrophicModelling.bib
vignettes/components/default_jwh.latex
vignettes/components/ecology.csl
vignettes/components/elsarticle.cls
vignettes/components/elsarticle.latex
vignettes/components/freshwater-science.csl
vignettes/components/hkm2014.Rmdx
vignettes/components/manuscript.latex
vignettes/components/plos.csl
vignettes/components/plos_template.tex
vignettes/components/template.docx
vignettes/ecosphere_final/ecs21321-sup-0001-AppendixS1.pdf
vignettes/ecosphere_final/ecs2_1321.pdf
vignettes/ecosphere_final/ecs2_1321_jwh.pdf
vignettes/ecosphere_final/hollisterES15-00703R_fig1.tiff
vignettes/ecosphere_final/hollisterES15-00703R_fig10.tiff
vignettes/ecosphere_final/hollisterES15-00703R_fig11.tiff
vignettes/ecosphere_final/hollisterES15-00703R_fig2.tiff
vignettes/ecosphere_final/hollisterES15-00703R_fig3.tiff
vignettes/ecosphere_final/hollisterES15-00703R_fig4.tiff
vignettes/ecosphere_final/hollisterES15-00703R_fig5.tiff
vignettes/ecosphere_final/hollisterES15-00703R_fig6.tiff
vignettes/ecosphere_final/hollisterES15-00703R_fig7.tiff
vignettes/ecosphere_final/hollisterES15-00703R_fig8.tiff
vignettes/ecosphere_final/hollisterES15-00703R_fig9.tiff
vignettes/ecosphere_final/manuscript.docx
vignettes/ecosphere_final/manuscriptAppendix.docx
vignettes/ecosphere_submission/cover_letter.Rmd
vignettes/ecosphere_submission/cover_letter.pdf
vignettes/ecosphere_submission/cover_letter_resubmit.Rmd
vignettes/ecosphere_submission/cover_letter_resubmit.pdf
vignettes/ecosphere_submission/epa_letterhead.jpg
vignettes/ecosphere_submission/manuscript.Rmd
vignettes/ecosphere_submission/manuscript.pdf
vignettes/ecosphere_submission/manuscript.tex
vignettes/ecosphere_submission/response.Rmd
vignettes/ecosphere_submission/response.pdf
vignettes/ecosphere_submission/review_first_submission.txt
vignettes/figure/Importance_Model1-1.jpeg
vignettes/figure/Importance_Model2-1.jpeg
vignettes/figure/Importance_Model3-1.jpeg
vignettes/figure/Importance_Model4-1.jpeg
vignettes/figure/Importance_Model5-1.jpeg
vignettes/figure/Importance_Model6-1.jpeg
vignettes/figure/all_prob_map.jpg
vignettes/figure/condProbFig-1.jpeg
vignettes/figure/eu_prob.jpg
vignettes/figure/gis_prob_map.jpg
vignettes/figure/hyper_prob.jpg
vignettes/figure/meso_prob.jpg
vignettes/figure/nlaMap-1.jpeg
vignettes/figure/oligo_prob.jpg
vignettes/figure/scatterplot-1.jpeg
vignettes/figure/ts_2_cyano_cdf-1.jpeg
vignettes/figure/ts_3_cyano_cdf-1.jpeg
vignettes/figure/ts_4_cyano_cdf-1.jpeg
vignettes/figure/varsel_all_plot.pdf
vignettes/fws_submission/.remake/db/52736a65e967b5bbeb8e7a8383edfcc4.rds
vignettes/fws_submission/.remake/db/5a558d2c342206783ef8c1a8b5bd298e.rds
vignettes/fws_submission/.remake/db/d7200c880b79ed11e6c70db6f483cb8a.rds
vignettes/fws_submission/.remake/db/fba69498d892305bb982b4d098e8932f.rds
vignettes/fws_submission/.remake/db/ff8a254ccf47adaee64dda330cfaa6ff.rds
vignettes/fws_submission/.remake/objects/all
vignettes/fws_submission/.remake/objects/all__hash
vignettes/fws_submission/.remake/objects/manuscript.docx
vignettes/fws_submission/.remake/objects/manuscript.docx__hash
vignettes/fws_submission/cat-pushing-watermelon-out-of-lake.jpg
vignettes/fws_submission/components/LakeTrophicModelling.bib
vignettes/fws_submission/components/default_jwh.latex
vignettes/fws_submission/components/ecology.csl
vignettes/fws_submission/components/elsarticle.cls
vignettes/fws_submission/components/elsarticle.latex
vignettes/fws_submission/components/freshwater-science.csl
vignettes/fws_submission/components/hkm2014.Rmdx
vignettes/fws_submission/components/manuscript.latex
vignettes/fws_submission/components/plos.csl
vignettes/fws_submission/components/plos_template.tex
vignettes/fws_submission/components/template.docx
vignettes/fws_submission/cover_letter.Rmd
vignettes/fws_submission/cover_letter.pdf
vignettes/fws_submission/epa_letterhead.jpg
vignettes/fws_submission/figure/fig10_ts_3_cyano_cdf-1.jpeg
vignettes/fws_submission/figure/fig11_ts_2_cyano_cdf-1.jpeg
vignettes/fws_submission/figure/fig12_scatterplot-1.jpeg
vignettes/fws_submission/figure/fig1_nlaMap-1.jpeg
vignettes/fws_submission/figure/fig2_Importance_Model1-1.jpeg
vignettes/fws_submission/figure/fig3_Importance_Model2-1.jpeg
vignettes/fws_submission/figure/fig4_Importance_Model3-1.jpeg
vignettes/fws_submission/figure/fig5_Importance_Model4-1.jpeg
vignettes/fws_submission/figure/fig6_Importance_Model5-1.jpeg
vignettes/fws_submission/figure/fig7_Importance_Model6-1.jpeg
vignettes/fws_submission/figure/fig8_condProbFig-1.jpeg
vignettes/fws_submission/figure/fig9_ts_4_cyano_cdf-1.jpeg
vignettes/fws_submission/fws_reject.pdf
vignettes/fws_submission/fws_reject_20150609_bjk.pdf
vignettes/fws_submission/hollister_milstead_kreakie_submitted.docx
vignettes/fws_submission/manuscript.R
vignettes/fws_submission/manuscript.Rmd
vignettes/fws_submission/manuscript.docx
vignettes/fws_submission/manuscript.md
vignettes/fws_submission/manuscript.pdf
vignettes/fws_submission/manuscript.tex
vignettes/fws_submission/open_sign_4344960203_821cb56ec9_o_resize.jpg
vignettes/fws_submission/prepare_submission.R
vignettes/fws_submission/remake.yml
vignettes/manuscript.Rmd
vignettes/manuscript.pdf
vignettes/manuscript.tex
vignettes/manuscript_peerj.R
vignettes/manuscript_peerj.Rmd
vignettes/manuscript_peerj.pdf
vignettes/manuscript_peerj.tex
vignettes/sessionInfo.txt
vignettes/sessioninfo.txt
