├── .Rbuildignore ├── .Rprofile ├── .gitattributes ├── .gitignore ├── DESCRIPTION ├── LandGenCourse.Rproj ├── NAMESPACE ├── R ├── chooseWEAddin.R ├── detachAllPackages.R ├── installDGS.R ├── openCheatsheetAddin.R ├── startTutorialAddin.R └── watchVideoAddin.R ├── README.md ├── data ├── Dianthus.RData ├── WWP.ecogen.RData ├── dd.ecogen.RData ├── dd.genind.RData ├── dd.site.RData ├── ralu.loci.RData └── ralu.loci.csv ├── inst ├── doc │ ├── Week0_BasicR.R │ ├── Week0_BasicR.Rmd │ ├── Week0_BasicR.html │ ├── Week0_Graphics.R │ ├── Week0_Graphics.Rmd │ ├── Week0_Graphics.html │ ├── Week10_bonus_vignette.R │ ├── Week10_bonus_vignette.Rmd │ ├── Week10_bonus_vignette.html │ ├── Week10_vignette.R │ ├── Week10_vignette.Rmd │ ├── Week10_vignette.html │ ├── Week11_vignette.R │ ├── Week11_vignette.Rmd │ ├── Week11_vignette.html │ ├── Week12_vignette.R │ ├── Week12_vignette.Rmd │ ├── Week12_vignette.html │ ├── Week13_vignette.R │ ├── Week13_vignette.Rmd │ ├── Week13_vignette.html │ ├── Week14_vignette.R │ ├── Week14_vignette.Rmd │ ├── Week14_vignette.html │ ├── Week1_vignette.R │ ├── Week1_vignette.Rmd │ ├── Week1_vignette.html │ ├── Week2_bonus_vignette.R │ ├── Week2_bonus_vignette.Rmd │ ├── Week2_bonus_vignette.html │ ├── Week2_vignette.R │ ├── Week2_vignette.Rmd │ ├── Week2_vignette.html │ ├── Week3_vignette.R │ ├── Week3_vignette.Rmd │ ├── Week3_vignette.html │ ├── Week4_vignette.R │ ├── Week4_vignette.Rmd │ ├── Week4_vignette.html │ ├── Week5_vignette.R │ ├── Week5_vignette.Rmd │ ├── Week5_vignette.html │ ├── Week6_vignette.R │ ├── Week6_vignette.Rmd │ ├── Week6_vignette.html │ ├── Week7_bonus_vignette.Rmd │ ├── Week7_bonus_vignette.html │ ├── Week7_vignette.R │ ├── Week7_vignette.Rmd │ ├── Week7_vignette.html │ ├── Week8_bonus_vignette.R │ ├── Week8_bonus_vignette.Rmd │ ├── Week8_bonus_vignette.html │ ├── Week8_vignette.R │ ├── Week8_vignette.Rmd │ ├── Week8_vignette.html │ ├── Week9_vignette.R │ ├── Week9_vignette.Rmd │ └── Week9_vignette.html ├── extdata │ ├── .gitignore │ ├── BashExample.sh │ ├── CSF_network.csv │ ├── Colortable_LULC.csv │ ├── EnvironmentalData_8pred.csv │ ├── ExcelTable.png │ ├── Frogs_diversity_allpops.csv │ ├── Index_of_functions_formatted.pdf │ ├── Patch_XY_Dianthus.csv │ ├── RALU_Dps.csv │ ├── RALU_Site.csv │ ├── RCommands.docx │ ├── Testfile.Rmd │ ├── Testfile.nb.html │ ├── WE12_Fig1.PNG │ ├── WE13_Fig1.png │ ├── WE9_Fig1.png │ ├── WE9_Fig2.png │ ├── WWP_SNP_genotypes.txt │ ├── WWP_environmental_data.txt │ ├── WWP_phenotype_data.txt │ ├── Wetlands.csv │ ├── dModels.rds │ ├── dataNm1.str │ ├── dataNm10.txt │ ├── dataNm2.txt │ ├── myNotebook.Rmd │ ├── panel.cor.r │ ├── pulsatilla_genotypes.csv │ ├── pulsatilla_momVariables.csv │ ├── pulsatilla_population.csv │ ├── ralu.loci.csv │ ├── ralu.rasters.rds │ ├── ralu_coords_allpops.csv │ ├── ralu_dc.csv │ ├── ralu_loci_allpops.csv │ ├── supplemental_R_functions.R │ └── wolf_geno_samp_10000.csv └── rstudio │ └── addins.dcf ├── man ├── Dianthus.Rd ├── WWP.ecogen.Rd ├── chooseWEAddin.Rd ├── dd.ecogen.Rd ├── dd.genind.Rd ├── dd.site.Rd ├── detachAllPackages.Rd ├── installDGS.Rd ├── openCheatsheetAddin.Rd ├── ralu.loci.Rd ├── startTutorialAddin.Rd └── watchVideoAddin.Rd └── vignettes ├── .gitignore ├── WE12_Fig1.PNG ├── WE13_Fig1.png ├── WE9_Fig1.png ├── WE9_Fig2.png ├── Week0_BasicR.Rmd ├── Week0_Graphics.Rmd ├── Week10_bonus_vignette.Rmd ├── Week10_vignette.Rmd ├── Week11_vignette.Rmd ├── Week12_vignette.Rmd ├── Week13_vignette.Rmd ├── Week14_vignette.Rmd ├── Week1_vignette.Rmd ├── Week2_bonus_vignette.Rmd ├── Week2_vignette.Rmd ├── Week3_vignette.Rmd ├── Week4_vignette.Rmd ├── Week5_vignette.Rmd ├── Week6_vignette.Rmd ├── Week7_bonus_vignette.Rmd ├── Week7_vignette.Rmd ├── Week8_bonus_vignette.Rmd ├── Week8_vignette.Rmd ├── Week9_vignette.Rmd ├── radish_tutorial_fig1A.png └── radish_tutorial_fig1B.png /.Rbuildignore: -------------------------------------------------------------------------------- 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