Files in stranda/holoSimCell
Linked demographic/genetic simulation
.DS_Store
.Rapp.history
.Rbuildignore
.gitignore
DESCRIPTION
NAMESPACE
R/.DS_Store
R/Nvec_NAs.R
R/OLD/additional_stats_functions.R
R/OLD/holoStats.R
R/OLD/runFSC_step.R
R/OLD/runFSC_step_agg.R
R/OLD/spatial_sumstats_functions_alvaradoserrano.R
R/RcppExports.R
R/additional_stats_functions.R
R/aggregate.R
R/assignRefugiaFromAbundanceRaster.r
R/chooseCells.R
R/datadoc.R
R/def_grid2.R
R/drawParms.R
R/forwardGUI.R
R/helper-functions.R
R/holoSimCell.R
R/holoStats.R
R/integrate-mig-mat.R
R/makePopdf.R
R/parseColHist.R
R/plotCellsOnSuit.R
R/plothist.R
R/plothistslice.R
R/pophist-cells2.R
R/pophistToArray.r
R/runFSC_step_agg3.R
R/segmentGLM.R
R/spatial_sumstats_functions_alvaradoserrano_edited.R
R/testCoal.R
R/testph.R
R/utilities.R
README.md
data/.DS_Store
data/enmScenarios.rda
data/imputed.rda
data/pollenPulls.rda
data/popmap.rda
data/pts.rda
holoSimCell.Rproj
inst/extdata/.DS_Store
inst/extdata/ashpaper/.DS_Store
inst/extdata/ashpaper/Ash_observed_stats.R
inst/extdata/ashpaper/Ash_priors.csv
inst/extdata/ashpaper/OLD/MSU/hSC_Ash2.R
inst/extdata/ashpaper/OLD/MSU/qsub_Ash.sh
inst/extdata/ashpaper/OLD/hSC_Ash.R
inst/extdata/ashpaper/OLD/hSC_Ash2.R
inst/extdata/ashpaper/OLD/hSC_Ash3.R
inst/extdata/ashpaper/OLD/hSC_Ash_aes.sh
inst/extdata/ashpaper/OLD/hSC_test_May2020.R
inst/extdata/ashpaper/OLD/test_agg_FSC.R
inst/extdata/ashpaper/OLD/test_demo_res.R
inst/extdata/ashpaper/hSC_Ash.R
inst/extdata/ashpaper/hSC_Ash_vanilla.R
inst/extdata/ashpaper/hSC_Ash_with_enms.R
inst/extdata/ashpaper/hSC_Ash_with_pollen.R
inst/extdata/ashpaper/predsetup.R
inst/extdata/ashpaper/resdata.rda
inst/extdata/ashpaper/runscriptMSU.sh
inst/extdata/ashpaper/study_region_daltonIceMask_lakesMasked_linearIceSheetInterpolation.tif
inst/extdata/ashpaper/study_region_daltonIceMask_noLakes_linearIceSheetInterpolation.tif
inst/extdata/ashpaper/testCells.R
inst/extdata/cluster/prep_iCER.sh
inst/extdata/cluster/requiresources.R
inst/extdata/csv/priors.csv
inst/extdata/csv/scenarios.csv
inst/extdata/landscapes/ccsm_160kmExtent_brt.rda
inst/extdata/landscapes/ccsm_160kmExtent_glm.rda
inst/extdata/landscapes/ccsm_160kmExtent_maxent.rda
inst/extdata/landscapes/ccsm_160kmExtent_ns.rda
inst/extdata/landscapes/ccsm_320kmExtent_brt.rda
inst/extdata/landscapes/ccsm_320kmExtent_glm.rda
inst/extdata/landscapes/ccsm_320kmExtent_maxent.rda
inst/extdata/landscapes/ccsm_320kmExtent_ns.rda
inst/extdata/landscapes/ccsm_80kmExtent_brt.rda
inst/extdata/landscapes/ccsm_80kmExtent_glm.rda
inst/extdata/landscapes/ccsm_80kmExtent_maxent.rda
inst/extdata/landscapes/ccsm_80kmExtent_ns.rda
inst/extdata/landscapes/ecbilt_160kmExtent_brt.rda
inst/extdata/landscapes/ecbilt_160kmExtent_glm.rda
inst/extdata/landscapes/ecbilt_160kmExtent_maxent.rda
inst/extdata/landscapes/ecbilt_160kmExtent_ns.rda
inst/extdata/landscapes/ecbilt_320kmExtent_brt.rda
inst/extdata/landscapes/ecbilt_320kmExtent_glm.rda
inst/extdata/landscapes/ecbilt_320kmExtent_maxent.rda
inst/extdata/landscapes/ecbilt_320kmExtent_ns.rda
inst/extdata/landscapes/ecbilt_80kmExtent_brt.rda
inst/extdata/landscapes/ecbilt_80kmExtent_glm.rda
inst/extdata/landscapes/ecbilt_80kmExtent_maxent.rda
inst/extdata/landscapes/ecbilt_80kmExtent_ns.rda
inst/extdata/landscapes/naive.rda
inst/extdata/landscapes/pollenPull_1.rda
inst/extdata/landscapes/pollenPull_10.rda
inst/extdata/landscapes/pollenPull_100.rda
inst/extdata/landscapes/pollenPull_101.rda
inst/extdata/landscapes/pollenPull_102.rda
inst/extdata/landscapes/pollenPull_103.rda
inst/extdata/landscapes/pollenPull_104.rda
inst/extdata/landscapes/pollenPull_105.rda
inst/extdata/landscapes/pollenPull_106.rda
inst/extdata/landscapes/pollenPull_107.rda
inst/extdata/landscapes/pollenPull_108.rda
inst/extdata/landscapes/pollenPull_109.rda
inst/extdata/landscapes/pollenPull_11.rda
inst/extdata/landscapes/pollenPull_110.rda
inst/extdata/landscapes/pollenPull_111.rda
inst/extdata/landscapes/pollenPull_112.rda
inst/extdata/landscapes/pollenPull_113.rda
inst/extdata/landscapes/pollenPull_114.rda
inst/extdata/landscapes/pollenPull_115.rda
inst/extdata/landscapes/pollenPull_116.rda
inst/extdata/landscapes/pollenPull_117.rda
inst/extdata/landscapes/pollenPull_118.rda
inst/extdata/landscapes/pollenPull_119.rda
inst/extdata/landscapes/pollenPull_12.rda
inst/extdata/landscapes/pollenPull_120.rda
inst/extdata/landscapes/pollenPull_121.rda
inst/extdata/landscapes/pollenPull_122.rda
inst/extdata/landscapes/pollenPull_123.rda
inst/extdata/landscapes/pollenPull_124.rda
inst/extdata/landscapes/pollenPull_125.rda
inst/extdata/landscapes/pollenPull_126.rda
inst/extdata/landscapes/pollenPull_127.rda
inst/extdata/landscapes/pollenPull_128.rda
inst/extdata/landscapes/pollenPull_129.rda
inst/extdata/landscapes/pollenPull_13.rda
inst/extdata/landscapes/pollenPull_130.rda
inst/extdata/landscapes/pollenPull_131.rda
inst/extdata/landscapes/pollenPull_132.rda
inst/extdata/landscapes/pollenPull_133.rda
inst/extdata/landscapes/pollenPull_134.rda
inst/extdata/landscapes/pollenPull_135.rda
inst/extdata/landscapes/pollenPull_136.rda
inst/extdata/landscapes/pollenPull_137.rda
inst/extdata/landscapes/pollenPull_138.rda
inst/extdata/landscapes/pollenPull_139.rda
inst/extdata/landscapes/pollenPull_14.rda
inst/extdata/landscapes/pollenPull_140.rda
inst/extdata/landscapes/pollenPull_141.rda
inst/extdata/landscapes/pollenPull_142.rda
inst/extdata/landscapes/pollenPull_143.rda
inst/extdata/landscapes/pollenPull_144.rda
inst/extdata/landscapes/pollenPull_145.rda
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inst/extdata/landscapes/pollenPull_148.rda
inst/extdata/landscapes/pollenPull_149.rda
inst/extdata/landscapes/pollenPull_15.rda
inst/extdata/landscapes/pollenPull_150.rda
inst/extdata/landscapes/pollenPull_151.rda
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inst/extdata/landscapes/pollenPull_155.rda
inst/extdata/landscapes/pollenPull_156.rda
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inst/extdata/landscapes/pollenPull_159.rda
inst/extdata/landscapes/pollenPull_16.rda
inst/extdata/landscapes/pollenPull_160.rda
inst/extdata/landscapes/pollenPull_161.rda
inst/extdata/landscapes/pollenPull_162.rda
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inst/extdata/landscapes/pollenPull_165.rda
inst/extdata/landscapes/pollenPull_166.rda
inst/extdata/landscapes/pollenPull_167.rda
inst/extdata/landscapes/pollenPull_168.rda
inst/extdata/landscapes/pollenPull_169.rda
inst/extdata/landscapes/pollenPull_17.rda
inst/extdata/landscapes/pollenPull_170.rda
inst/extdata/landscapes/pollenPull_171.rda
inst/extdata/landscapes/pollenPull_172.rda
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inst/extdata/landscapes/pollenPull_174.rda
inst/extdata/landscapes/pollenPull_175.rda
inst/extdata/landscapes/pollenPull_176.rda
inst/extdata/landscapes/pollenPull_177.rda
inst/extdata/landscapes/pollenPull_178.rda
inst/extdata/landscapes/pollenPull_179.rda
inst/extdata/landscapes/pollenPull_18.rda
inst/extdata/landscapes/pollenPull_180.rda
inst/extdata/landscapes/pollenPull_181.rda
inst/extdata/landscapes/pollenPull_182.rda
inst/extdata/landscapes/pollenPull_183.rda
inst/extdata/landscapes/pollenPull_184.rda
inst/extdata/landscapes/pollenPull_185.rda
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inst/extdata/landscapes/pollenPull_187.rda
inst/extdata/landscapes/pollenPull_188.rda
inst/extdata/landscapes/pollenPull_189.rda
inst/extdata/landscapes/pollenPull_19.rda
inst/extdata/landscapes/pollenPull_190.rda
inst/extdata/landscapes/pollenPull_191.rda
inst/extdata/landscapes/pollenPull_192.rda
inst/extdata/landscapes/pollenPull_193.rda
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inst/extdata/landscapes/pollenPull_199.rda
inst/extdata/landscapes/pollenPull_2.rda
inst/extdata/landscapes/pollenPull_20.rda
inst/extdata/landscapes/pollenPull_200.rda
inst/extdata/landscapes/pollenPull_21.rda
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inst/extdata/landscapes/pollenPull_3.rda
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inst/extdata/landscapes/pollenPull_35.rda
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inst/extdata/landscapes/pollenPull_38.rda
inst/extdata/landscapes/pollenPull_39.rda
inst/extdata/landscapes/pollenPull_4.rda
inst/extdata/landscapes/pollenPull_40.rda
inst/extdata/landscapes/pollenPull_41.rda
inst/extdata/landscapes/pollenPull_42.rda
inst/extdata/landscapes/pollenPull_43.rda
inst/extdata/landscapes/pollenPull_44.rda
inst/extdata/landscapes/pollenPull_45.rda
inst/extdata/landscapes/pollenPull_46.rda
inst/extdata/landscapes/pollenPull_47.rda
inst/extdata/landscapes/pollenPull_48.rda
inst/extdata/landscapes/pollenPull_49.rda
inst/extdata/landscapes/pollenPull_5.rda
inst/extdata/landscapes/pollenPull_50.rda
inst/extdata/landscapes/pollenPull_51.rda
inst/extdata/landscapes/pollenPull_52.rda
inst/extdata/landscapes/pollenPull_53.rda
inst/extdata/landscapes/pollenPull_54.rda
inst/extdata/landscapes/pollenPull_55.rda
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inst/extdata/landscapes/pollenPull_57.rda
inst/extdata/landscapes/pollenPull_58.rda
inst/extdata/landscapes/pollenPull_59.rda
inst/extdata/landscapes/pollenPull_6.rda
inst/extdata/landscapes/pollenPull_60.rda
inst/extdata/landscapes/pollenPull_61.rda
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inst/extdata/landscapes/pollenPull_63.rda
inst/extdata/landscapes/pollenPull_64.rda
inst/extdata/landscapes/pollenPull_65.rda
inst/extdata/landscapes/pollenPull_66.rda
inst/extdata/landscapes/pollenPull_67.rda
inst/extdata/landscapes/pollenPull_68.rda
inst/extdata/landscapes/pollenPull_69.rda
inst/extdata/landscapes/pollenPull_7.rda
inst/extdata/landscapes/pollenPull_70.rda
inst/extdata/landscapes/pollenPull_71.rda
inst/extdata/landscapes/pollenPull_72.rda
inst/extdata/landscapes/pollenPull_73.rda
inst/extdata/landscapes/pollenPull_74.rda
inst/extdata/landscapes/pollenPull_75.rda
inst/extdata/landscapes/pollenPull_76.rda
inst/extdata/landscapes/pollenPull_77.rda
inst/extdata/landscapes/pollenPull_78.rda
inst/extdata/landscapes/pollenPull_79.rda
inst/extdata/landscapes/pollenPull_8.rda
inst/extdata/landscapes/pollenPull_80.rda
inst/extdata/landscapes/pollenPull_81.rda
inst/extdata/landscapes/pollenPull_82.rda
inst/extdata/landscapes/pollenPull_83.rda
inst/extdata/landscapes/pollenPull_84.rda
inst/extdata/landscapes/pollenPull_85.rda
inst/extdata/landscapes/pollenPull_86.rda
inst/extdata/landscapes/pollenPull_87.rda
inst/extdata/landscapes/pollenPull_88.rda
inst/extdata/landscapes/pollenPull_89.rda
inst/extdata/landscapes/pollenPull_9.rda
inst/extdata/landscapes/pollenPull_90.rda
inst/extdata/landscapes/pollenPull_91.rda
inst/extdata/landscapes/pollenPull_92.rda
inst/extdata/landscapes/pollenPull_93.rda
inst/extdata/landscapes/pollenPull_94.rda
inst/extdata/landscapes/pollenPull_95.rda
inst/extdata/landscapes/pollenPull_96.rda
inst/extdata/landscapes/pollenPull_97.rda
inst/extdata/landscapes/pollenPull_98.rda
inst/extdata/landscapes/pollenPull_99.rda
inst/extdata/oldshiny/server.R
inst/extdata/oldshiny/ui.R
inst/extdata/rasters/ccsm_160kmExtent_maxent.tif
inst/extdata/rasters/study_region_daltonIceMask_lakesMasked_linearIceSheetInterpolation.tif
inst/extdata/rasters/study_region_daltonIceMask_noLakes_linearIceSheetInterpolation.tif
inst/extdata/rawpollen/habitat_suitability_pollen_ICE_v1.RDS
inst/extdata/rawpollen/habitat_suitability_pollen_xyvals.RDS
inst/extdata/rawpollen/raw2pred.R
inst/extdata/scripts/AshLand.csv
inst/extdata/scripts/impute_make_suit_layer.R
inst/extdata/scripts/phtest.R
inst/extdata/scripts/runFSC_step3.R
inst/extdata/scripts/scenarios.csv
inst/extdata/scripts/setup_samps_preds_FSC.R
inst/extdata/scripts/sim_spatstat.R
inst/extdata/scripts/simrep.R
inst/extdata/scripts/simrep_Ash.R
inst/extdata/scripts/test_agg_FSC.R
inst/extdata/scripts/test_aggregate.R
inst/extdata/shiny/.Rapp.history
inst/extdata/shiny/server-old.R
inst/extdata/shiny/server.R
inst/extdata/shiny/ui-old.R
inst/extdata/shiny/ui.R
man/.DS_Store
man/NvecNAs.Rd
man/ashRemoveGeneticPops.Rd
man/ashSetupLandscape.Rd
man/assignRefugiaFromAbundanceRaster.Rd
man/chooseRefugeCells.Rd
man/def_grid_pred2.Rd
man/distancePDF.Rd
man/doesGmapCombine.Rd
man/drawParms.Rd
man/enmScenarios.Rd
man/forwardGUI.Rd
man/get.gSum.Rd
man/get.nSNP.Rd
man/getpophist2.cells.Rd
man/holoSimCell.Rd
man/holoStats.Rd
man/imputed.Rd
man/integratedDispMat.Rd
man/integratedMigMat.Rd
man/make.gmap.Rd
man/makePopdf.Rd
man/newLandscapeDim.Rd
man/parseColhist.Rd
man/plotCellsOnSuit.Rd
man/plotHistSlice.Rd
man/plothist.Rd
man/pollenPulls.Rd
man/pophist.aggregate.Rd
man/pophistToArray.Rd
man/popmap.Rd
man/pts.Rd
man/runFSC_step_agg3.Rd
man/testPophist.Rd
man/transSampLoc.Rd
parms.rda
src/RcppExports.cpp
src/helpers.cpp
tests/testthat.R
tests/testthat/mafreq-out.rds
tests/testthat/pwise-fst-glob-out.rds
tests/testthat/test-helper-functions.R
