Files in AndySouth/resistance
an insecticide resistance population genetics model with 2 loci and 2 insecticides
.Rbuildignore
.gitignore
DESCRIPTION
Matt/AttemptPlottingRotations.Rmd
Matt/DefaultValuesVarianceInFitness.Rmd
Matt/InteractionPlotsMosaics.R
Matt/findResistancePointsRotation.R
Matt/git-instructions-for-matt.Rmd
Matt/sensiAnMosaicInteractions.R
Matt/sensiAnPaperPartMatt.R
NAMESPACE
R/HW.r
R/array_named.r
R/calc_fit_rs.r
R/createGametes.r
R/createInputMatrix.r
R/findResistancePoints.r
R/findResistancePointsMixResponsive.r
R/fit_time_genotype.r
R/fitnessGenotype.r
R/fitnessNiche.r
R/fitnessOutput.r
R/fitnessPrint.r
R/fitnessSingleLocus.r
R/genotypesLong2Short.r
R/get_resistance.R
R/inputs_from_gen_fit.r
R/linkage_calc.r
R/make.genotypemat.r
R/make.matrix.r
R/plot_exposure.r
R/plot_fit_calc.r
R/plot_fit_rs.r
R/plot_fit_variance.r
R/plot_ld_gpirm.r
R/plot_outputs_all.r
R/plotallele.freq.andy.r
R/plotallele.freq.r
R/plotcurtis_f1.r
R/plotcurtis_f2.r
R/plotcurtis_f2_generic.r
R/plotcurtis_ld.r
R/plothaplotype.r
R/plotlinkage.r
R/plotsimpfit.r
R/randomMating.r
R/relaxSelection.r
R/resistSimple.r
R/resistance-package.r
R/resistanceMaster.r
R/resistance_freq_count.r
R/runModel.r
R/runModel2.r
R/runUIs.R
R/runcurtis_f2.r
R/selection.r
R/selection_simple.r
R/sensiAn1.r
R/sensiAnPaperPart.r
R/sensiAnPaperPartOneAtATime.r
R/setExposure.r
R/setExposureFromInput.r
R/setInputOneScenario.r
R/setInputSensiScenarios.r
R/singlealleleFrequency.r
R/timetoFifty.r
README.md
inst/documents/effectOfIndividualInputs.Rmd
inst/documents/effectiveness_exposure_difference.Rmd
inst/documents/keep_old_insecticide.Rmd
inst/documents/linkage_dis_2017.Rmd
inst/documents/paper1/old/pap1_figs_slimmed_50_unequal.Rmd
inst/documents/paper1/old/paper1_results_figs.Rmd
inst/documents/paper1/old/paper1_results_figs_rr.Rmd
inst/documents/paper1/old/paper1_results_figs_slimmed.Rmd
inst/documents/paper1/old/paper1_results_figs_slimmed_50.Rmd
inst/documents/paper1/pap1_curtis1.png
inst/documents/paper1/pap1_curtis1.tif
inst/documents/paper1/pap1_curtis1_both.png
inst/documents/paper1/pap1_curtis2.png
inst/documents/paper1/pap1_curtis2.tif
inst/documents/paper1/pap1figs/Fig1-1.tiff
inst/documents/paper1/pap1figs/Fig10-1.tiff
inst/documents/paper1/pap1figs/Fig11-1.tiff
inst/documents/paper1/pap1figs/Fig2-1.tiff
inst/documents/paper1/pap1figs/Fig2_justNew-1.tiff
inst/documents/paper1/pap1figs/Fig3-1.tiff
inst/documents/paper1/pap1figs/Fig4-1.tiff
inst/documents/paper1/pap1figs/Fig5-1.tiff
inst/documents/paper1/pap1figs/Fig6-1.tiff
inst/documents/paper1/pap1figs/Fig7-1.tiff
inst/documents/paper1/pap1figs/Fig8-1.tiff
inst/documents/paper1/pap1figs/Fig9-1.tiff
inst/documents/paper1/paper1_results_figs_slimmed_50_rr.Rmd
inst/documents/paper2/biomed-central.csl
inst/documents/paper2/cost_of_resistance.Rmd
inst/documents/paper2/field_data_in.Rmd
inst/documents/paper2/field_data_in.docx
inst/documents/paper2/fig1_revised.Rmd
inst/documents/paper2/fig1_revised.docx
inst/documents/paper2/fig1new_genotypes.pptx
inst/documents/paper2/fig3UI_inc_cost.pptx
inst/documents/paper2/library.bib
inst/documents/paper2/mosquito_small.png
inst/documents/paper2/mosquito_thumbnail.png
inst/documents/paper2/pap2_fig1new_genotypes.docx
inst/documents/paper2/pap2figs/Fig1-genotypes.tif
inst/documents/paper2/pap2figs/Fig10-1.tiff
inst/documents/paper2/pap2figs/Fig11-1.tiff
inst/documents/paper2/pap2figs/Fig2-1.tiff
inst/documents/paper2/pap2figs/Fig3_UI.png
inst/documents/paper2/pap2figs/Fig4-1.tiff
inst/documents/paper2/pap2figs/Fig5-1.tiff
inst/documents/paper2/pap2figs/Fig6-1.tiff
inst/documents/paper2/pap2figs/Fig7-1.tiff
inst/documents/paper2/pap2figs/Fig8-1.tiff
inst/documents/paper2/pap2figs/Fig9-1.tiff
inst/documents/paper2/paper2_UI1.png
inst/documents/paper2/paper2_fig1new_genotypes.tif
inst/documents/paper2/paper2_input_effects_single.png
inst/documents/paper2/paper2_mod_graphic_a.png
inst/documents/paper2/paper2_mod_graphic_a_to_c.png
inst/documents/paper2/paper2_mod_graphic_c.png
inst/documents/paper2/paper2_mod_graphic_d.png
inst/documents/paper2/paper2_resistance_mechanisms_mixtures.Rmd
inst/documents/paper2/paper2_resistance_mechanisms_mixtures.docx
inst/documents/paper2/summary_fig-1.tiff
inst/documents/paper2/summary_fig_pap2.Rmd
inst/documents/paper2/summary_fig_pap2_labelled.png
inst/documents/paper2/summary_fig_pap2_labelled.pptx
inst/documents/paper2/test_linenumbers.Rmd
inst/documents/pub_health_j/paper2_UI1.png
inst/documents/pub_health_j/pub_health_j_figs.Rmd
inst/documents/resistanceModelNotesAndy.Rmd
inst/documents/sensiAnPaper1All.Rmd
inst/documents/testfigs.Rmd
inst/documents/testfigs_simpler.Rmd
inst/documents/wos_advantage_ian.r
inst/extdata/input.parameters.csv
inst/extdata/kolaczinski2000_kdr_survival.csv
inst/extdata/survival_from_genotype_livedead.xlsx
inst/shiny/MixSeqResist1/rsconnect/shinyapps.io/andysouth/MixSeqResist1.dcf
inst/shiny/MixSeqResist1/server.r
inst/shiny/MixSeqResist1/ui.r
inst/shiny/expovis/server.r
inst/shiny/expovis/ui.r
inst/shiny/fitvis/server.r
inst/shiny/fitvis/ui.r
inst/shiny/resistmixseq/about.md
inst/shiny/resistmixseq/server.r
inst/shiny/resistmixseq/ui.r
inst/shiny/resistmixseq/www/bootstrap_simplex.css
inst/shiny/resistmob2/rsconnect/shinyapps.io/andysouth/resistmob2.dcf
inst/shiny/resistmob2/server.r
inst/shiny/resistmob2/ui.r
inst/shiny/resistmob2/www/bootstrap_simplex.css
inst/shiny/resistmob_mosaic/rsconnect/shinyapps.io/andysouth/resistmob_mosaic.dcf
inst/shiny/resistmob_mosaic/server.r
inst/shiny/resistmob_mosaic/ui.r
inst/shiny/resistmob_mosaic/www/bootstrap_simplex.css
inst/shiny/shinyCurtis1/rsconnect/shinyapps.io/andysouth/shinyCurtis1.dcf
inst/shiny/shinyCurtis1/server.r
inst/shiny/shinyCurtis1/ui.r
inst/shiny/shinyCurtis2/server.r
inst/shiny/shinyCurtis2/ui.r
inst/shiny/shinyFig2Curtis/rsconnect/shinyapps.io/andysouth/shinyFig2Curtis.dcf
inst/shiny/shinyFig2Curtis/server.r
inst/shiny/shinyFig2Curtis/ui.r
inst/shiny/shinyMixSeqCompare1/listOutI1_100.rda
inst/shiny/shinyMixSeqCompare1/listOutI2_100.rda
inst/shiny/shinyMixSeqCompare1/listOutMix_100.rda
inst/shiny/shinyMixSeqCompare1/rsconnect/shinyapps.io/andysouth/shinyMixSeqCompare1.dcf
inst/shiny/shinyMixSeqCompare1/server.r
inst/shiny/shinyMixSeqCompare1/ui.r
inst/shiny/shinyMixSeqCompare2/listOutI1_100_2.rda
inst/shiny/shinyMixSeqCompare2/listOutI2_100_2.rda
inst/shiny/shinyMixSeqCompare2/listOutMix_100_2.rda
inst/shiny/shinyMixSeqCompare2/rsconnect/shinyapps.io/andysouth/shinyMixSeqCompare2.dcf
inst/shiny/shinyMixSeqCompare2/server.r
inst/shiny/shinyMixSeqCompare2/ui.r
inst/shiny/shinyNiche/rsconnect/shinyapps.io/andysouth/shinyNiche.dcf
inst/shiny/shinyNiche/server.r
inst/shiny/shinyNiche/ui.r
resistance.Rproj
tests/testthat.R
tests/testthat/testRefactoring.r
tests/testthat/test_fitnessNiche.r
tests/testthat/test_fitnessSingleLocus.r
