Files in cesco-lab/Vigie-Chiro_scripts

Predict Distribution Of Chiropter

#SyntheseTendances.R#

.Rbuildignore

.gitattributes

.gitignore

.travis.yml

AppShiny/MoreMess/SpeciesList.csv

AppShiny/MoreMess/Vigie-Chiro_tuto-Shiny_V2.pdf AppShiny/MoreMess/participation_Shiny.R AppShiny/MoreMess/server.R

AppShiny/MoreMess/temp.dsp

AppShiny/MoreMess/ui.R AppShiny/TC_Shiny.R AppShiny/TCs/TC_Shiny.R AppShiny/participation/MoreMess/participation_Shiny.R AppShiny/participation/MoreMess/server.R AppShiny/participation/MoreMess/ui.R

AppShiny/participation/SpeciesList.csv

AppShiny/participation/server.R

AppShiny/participation/temp.dsp

AppShiny/participation/ui.R AppShiny/participation_Shiny.R AppShiny/server.R

AppShiny/sp_shiny.rds

AppShiny/ui.R

BilanVigieChiro_pourVN.csv

CCsel_2023-04-19.csv

CarresAbandonnes.csv

CarthageP_dictionary.csv

Classes_coord.csv

CoefsAll.csv

CommunesLR.csv

CoupleSpIdentif.csv

DESCRIPTION

DurEnr.csv

EspStoc.csv

FmaxRP.csv

GIP.csv

GetListe2_2023-12-04.csv

IO/GI_carre_stoc_1_500_Lat41.45_51.61_Long-5.9_9.73.csv

LICENSE.md

LRcomC.csv

ListPartStuck.csv

ListSpCaptures.csv

Mics_BMRE_VC.csv

MissingPoints2022-07-19.csv

MissingTCZ.R

NAMESPACE

NDataSp.csv

NilssonSearch.csv

PG_Tadten.csv

PMax.csv

ParSelShifts2022-04-07.csv

PartiPoste.csv

Power analysis (Dubos et al MEE)

PredNew.csv

R/README

R/f_biodiv_modgis.R README.md

Recorders_BMRE_VC.csv

ScoreTab345_local.csv

SortingRPPFspecies.csv

SpeciesAll.csv

SyntheseTendances.R

TNP/TestNewProject/.Rbuildignore

TNP/TestNewProject/DATASET.R

TNP/TestNewProject/TestNewProject.Rproj

TNP/TestNewProject/dev_history.R TNP/TestNewProject/test.Rmd

TNP/TestNewProject/test.docx

ToImportRPspecies.csv

ValidCir.csv

appveyor.yml

chirovigie.Rproj

desktop.ini

dev_history.R

functions/GLMs/#f_Sp_GLM_short.R#

functions/GLMs/f_Sp_GLM_short.R functions/GrossV.R functions/extractGI/f_Coord_ALAN.R functions/extractGI/f_Coord_Alti.R functions/extractGI/f_Coord_Altipente.R functions/extractGI/f_Coord_Bioclim.R functions/extractGI/f_Coord_BioclimLocal.R functions/extractGI/f_Coord_CLC.R functions/extractGI/f_Coord_CLCraster.R functions/extractGI/f_Coord_CLCraster_test.R functions/extractGI/f_Coord_Carthage.R functions/extractGI/f_Coord_Carthage2017.R functions/extractGI/f_Coord_Carthage2017_test.R functions/extractGI/f_Coord_HW.R functions/extractGI/f_Coord_OCS_CESBIO.R functions/extractGI/f_Coord_OCS_CESBIO2018.R functions/extractGI/f_Coord_ROUTE500.R functions/extractGI/f_Coord_eoliennes.R functions/extractGI/f_combineGIS.R functions/extractGI/f_combineGISFR.R functions/f_Coord_Bioclim (1).R functions/f_Coord_Carthage (1).R functions/f_Coord_Carthage2017.R functions/f_Presence_Absence.R functions/f_SysSampl.R functions/f_biodiv_predictgi.R functions/f_coord_date_weather.r functions/f_interpole.R functions/get_weather.rmd

inputs/CountryGrids/carrenatFR.csv

inputs/CountryGrids/carrenat_96.csv

inputs/CountryGrids/carrenat_99.csv

inputs/CountryGrids/carrenat_AT.csv

inputs/CountryGrids/carrenat_AT.csv.output.0.json

inputs/CountryGrids/carrenat_FI.csv

inputs/CountryGrids/carrenat_LI.csv

inputs/CountryGrids/carrenat_LI.csv.output.0.json

inputs/CountryGrids/carrenat_belgique_centroids_wgs84.csv

inputs/CountryGrids/grille_stoc_csv_to_json.py

inputs/World_L93.cpg

inputs/World_L93.dbf

inputs/World_L93.prj

inputs/World_L93.qpj

inputs/World_L93.shp

inputs/World_L93.shx

inputs/all_IsoCodes.csv

inst/example-data/DataSpSL_Urosp_90_Data.csv

inst/example-data/GI_coordWGS84_SpNuit2_50_DataLP_PF_exportTot.csv

man/f_biodiv_modgis.Rd misc/ACombiner.R misc/AInscrire (1).r misc/AInscrire.r misc/ActFilter.r misc/ActNew.r misc/ActNewThreshold.r misc/ActOtherThreshold.r misc/ActSelGL.R misc/ActTot (1).r misc/ActTot.r misc/Act_SplitSp.R misc/AggDiverging.R misc/AggTC.R misc/AllDiagMicro.R misc/AllLibs.R misc/AnalyseBesoinFormation.R misc/AnalyseCapture.R misc/AnoPartPoint_pem.R misc/Anomalie_boxplots.R misc/Anomalies_noms_fichiers.R misc/Autocorr.R misc/BilanVN.R misc/Bilan_Annuel_Participation_VigieChiro.R misc/CACCHI/Check_data_PGsp.R misc/CACCHI/compil_data_perso.R misc/Capture_DateMiseBas.R misc/Capture_PA.R misc/CheckTrendDurSeq.R misc/CheckTrendDurSeq_new.R misc/Combine_exports.R misc/CompilValid.R misc/ComputeBatIndicatorONB.R misc/ComputeIndicatorONB.R misc/ComputeIndicatorONB_fromMathildeData.R misc/Computing SSI and CSI (1).r misc/Computing SSI and CSI.R

misc/Computing SSI and CSI.R (Dubos et al MEE, script 2)

misc/Contrib_Plot.R misc/CoordCurrent_CoordNew.R misc/Coord_ALAN.R misc/Coord_Alti.R misc/Coord_Bioclim.R misc/Coord_CLC.R misc/Coord_Carthage.R misc/Coord_OCS_CESBIO.R misc/Coord_Presence.R misc/Coord_SIG.R misc/DM_matchID.R misc/DMsample_IdSel.R misc/DataAll_forTrends.R misc/DataAll_pheno.R misc/DataCleaning/AllEcarts_addobs.R misc/DataCleaning/CheckChannelInversion.R misc/DataCleaning/export_CheckDoublons.R misc/DataGroup_PA (1).R misc/DataGroup_PA.R misc/DataGroup_pheno (1).R misc/DataGroup_pheno.R misc/DataRPPF_forTrends.R misc/DataRP_FiltCanal.R misc/DataRP_soundproblems.R misc/DataSel_CoordAll.R misc/DataSel_LocList.R misc/DataSel_PATot.R misc/DataSel_Radius.R misc/Data_SIG.r misc/Data_pourobservateurs (1).r misc/Data_pourobservateurs.r misc/DetailsResponseRF.R misc/EM_EMsample.R misc/EM_matchID.R misc/EMsample_IdSel.R misc/ETV_feedback.R misc/EVT_arecup.r

misc/EasyMerging.pptx

misc/ErrorRatePlotting.R misc/ExpansionManuel_Contrib.R misc/Exports/CopyWav_sel.R misc/Exports/DataL_SamplePerSp.R misc/Exports/DataNS_DataDep.R misc/Exports/DataOpen_weird.R misc/Exports/DataRP_V.R misc/Exports/DecProb_PartMissing.R misc/Exports/DiagMicro.R misc/Exports/Filter_conf.R misc/Exports/GenerateIdData.R

misc/Exports/MAJ_VCsuppl.zip

misc/Exports/OccDep_SINP.R misc/Exports/Particip_Dashboard.R misc/Exports/Particip_ListPartRP.R misc/Exports/RawExport_ancillary.R misc/Exports/SampleFiles.R misc/Exports/Sample_export.R misc/Exports/SpNuitTot.R misc/Exports/SpNuit_DurEnregistrement.R misc/Exports/SpNuit_PredictGites.R misc/Exports/WavExport_Ancillary.R misc/Exports/Wav_Ancillary.R misc/Exports/Wav_FilToD.R misc/Exports/Wav_unblock.R misc/Exports/export_EcartFiles.R misc/Exports/merge_GI_part.R misc/Exports/multi_untar.R misc/ExtendGridVigieChiro.R misc/Extr_Doublons.R misc/Extr_sel.R misc/FilesToImportBirds.R misc/ForNilsson.R misc/GCLR/GCLR_filter.R misc/GCLR/RefProspe.R misc/GIS/CarresAbandonnes.R misc/GIS/CreateNewCountry.R misc/GI_classes.R misc/GI_spplot.R misc/GLM_Pheno.R misc/GLM_predict.R misc/GLM_predictplot.R misc/GLM_tendances.R misc/IdExhaustifs.r misc/IdMatch_Err.R misc/Imports/CreateIrodsFolders.R misc/Imports/CreateIrodsFolders_aposteriori.R misc/Imports/CreateNewPoints.R misc/Imports/CreatePartGMB.R misc/Imports/CreateTarGz.R misc/Imports/CreateTarGz_ErrorProof.R misc/Imports/CreateTarGz_ErrorProof_parallel.R misc/Imports/CreateTarGz_ErrorProof_parallel_sitesaisi.R misc/Imports/CreateTarGz_Loren.R misc/Imports/CreateTar_ErrorProof_parallel_sitesaisi.R misc/Imports/RenameFoldersSLP.R misc/Imports/Rename_files_with_standard_participation_site_names_and_directory.R misc/Imports/Wav_Part.R misc/Imports/Wav_Part2.R misc/Imports/wav_unblock.R misc/Imports/wav_unblock2.R misc/Interpole (1).R misc/Interpole.R misc/JUNK_transformcovariates.R misc/ListParSel.R misc/ListSp_DataGroup.R misc/ListSp_pheno.R misc/MergeAnom.R misc/MergeProtocolsForTrends.R misc/MergeTrend.R misc/ModPred/Capture_PredProp.R misc/ModPred/Print_maps.R misc/ModPred/Print_maps_1date.R misc/ModPred/RF_contrib.R misc/ModPred/loop_PredictAct.R misc/MultiBioclim.R misc/MultiInterpole.R misc/NewValid.R misc/Obs_SpeciesAll.R misc/Occ_ClimaticNiche.R misc/Occ_Thermal_indices.R misc/Occ_Thermal_indices_Eobs.R misc/Occ_Thermal_indices_worldclim.R misc/OldData/ConcatenateOldExcelFiles.R misc/OldData/MatchIdRP.R misc/OldData/MatchIdRP_Direct.R misc/OldData/MatchIdRP_Exp.R misc/OrphanSites.R misc/PartNoSPS.R misc/PartPresence_pourvalid.R misc/PartSPS.R misc/PartWeather.R misc/Part_TCZarecup.R misc/ParticipForLinux.R misc/Particip_archives.R misc/Particip_region.R misc/PasRecup_TAZ_TCZ.R misc/PhenoH/DataLP_PhenoH.R misc/PhenoH/SynthPheno.R misc/Pipeline_GIS.R misc/Pipeline_GIS_Europe.R misc/PlotDataValid.R misc/PlotResponseRF.R misc/PoolGIS.r misc/PredPres_PredScore.R misc/Pred_spplot.R misc/PredictAct_MultiSp (1).R misc/PredictAct_MultiSp.R misc/PredictPresence_MultiSp.R misc/Predict_AbProp.R misc/Predict_Act.R misc/Predict_DM.R misc/Predict_Presence.R misc/Presence_Absence.R misc/Presence_Part.R misc/PrintSummary.R misc/Prod_BilanEspeces.R misc/Prod_indicateur_pred.R misc/Prod_indicateur_tc (1).R misc/Prod_indicateur_tc.R misc/Prod_indicateur_tc_180119_MJ.R misc/RP/DataRPPF_Trends.R misc/RP/DataRPPF_sorting.R misc/RP/DataRPPF_sorting_region.R misc/RP/DataRP_Fmax.R misc/RTE/CheckPostes.R misc/RawDataMapping.R misc/Referentiels/ActiviteHivernaleParHabitats.R misc/Referentiels/ComparaisonCorrectionOuNon.R misc/Referentiels/StatsParSaisons.R misc/RemoveKaleidoscopeLogFiles.R misc/ResidualsAnalysis.R misc/RetreatmentPriorities.R misc/RetrievePart_forWAVTApart.R misc/Roost/AddNewRefsGite.R misc/Roost/GCLR_roost_date_sp.R misc/Roost/ModProbaSpGites.R misc/Roost/PredProbaSpGites.R misc/Roost/SpNuit_CaptureTrack.R misc/Roost/SummaryPredictGite.R misc/SL_GBIF.R misc/SL_gites.R misc/SL_pourQGIS.R misc/SL_predgites.R misc/SPS/Get_CurrentDataInSPS.R misc/SPS/Part_TCZ.R misc/SPS/get_Listes2.R misc/STOC/DataSumm2.R misc/STOC/DataSumm3.R misc/STOC/DataTa_ClassifNaif.R misc/STOC/Perfsummary.R misc/STOC/PredNaifsummary.R misc/STOC/RecupCoefsX10.R misc/STOC/STOC_XC.R misc/STOC/XC_TadaridaD.R misc/STOC/XCmp3_wav.R misc/STOC/XCtabase.R misc/STOC/XCwav_mix.R misc/STOC/XCwav_split.R misc/STOC/XCwav_x10.R misc/STOC/dataSTOC_Summary.R misc/SampDiv_Part.R misc/SamplEffort.R misc/Sample/DataToImport_filters.R misc/Sample/GISL_criteria.R misc/Sarah/AddNight.R misc/Sarah/duree_seq.R misc/SelExportDonnees (1).R misc/SelExportDonnees.R misc/SelTaxaPic (1).R misc/SelTaxaPic.R misc/SpFiltDate.R misc/SpNuit/Act_Maj_EPA.R misc/SpNuit/Referentiel_MultiSites.R misc/SpNuit5090.R misc/SpNuitTron_ModActGrid.R misc/SpNuit_Coord (1).R misc/SpNuit_Coord.R misc/SpNuit_Dpt.R misc/SpNuit_GpNuit.R misc/SpNuit_ModActGrid.R misc/SpNuit_ModActPt (1).R misc/SpNuit_ModActPt.R misc/SpNuit_ModPresPt (1).R misc/SpNuit_ModPresPt.R misc/SpNuit_MoussusDubosMethod.R misc/SpNuit_MoussusMethod.R misc/SpNuit_NCEP.R misc/SpNuit_RefCarto.R misc/SpNuit_SelModAscendant.R misc/SpNuit_climate.R misc/SpNuit_refPF.R misc/SpNuit_wind.R misc/SpTron_Dpt.R misc/SpTron_ModActGrid.R misc/SpTron_refRP.R misc/Sp_GLM.R misc/Sp_GLMZI.R misc/Sp_GLM_short.R misc/Sp_Hurdle.R misc/Sp_MultiSp.R misc/Spipoll_DataSp.R misc/SplitData.R misc/Summaries/CountSeasideSites.R misc/Summaries/SummariesErrorBenchmark.R misc/Summaries/SummariesMultiChecking.R misc/Summaries/SummaryParticipants.R misc/SummaryTemporalRepetitions.R misc/SyntheseTendances.R misc/SynthesisResponseRF.R misc/SysSampl (1).R misc/SysSampl.R misc/TCZ_DataToCopy.R misc/TCZ_RematchValid.R misc/TCZ_samplvalid.R misc/TC_export (1).R misc/TC_export.R misc/TC_samplescores.R misc/Tadarida/RSDB_part.R misc/Traits/Buzz.R misc/Traits/ComputeHabitatTraits.R misc/Traits/RefIndicators.R misc/Traits_corr.R misc/TrendInteractions.R misc/Trends/AddRecordingTime.R misc/Trends/CheckConsistencyProbablyObsolete.R misc/Trends/CheckInfluenceSites.R misc/Trends/Contrib_Trends.R misc/Trends/FormatManualExpansion.R misc/Trends/Jointure2019.R misc/Trends/exploreDataTrends.R misc/Trends/extract_estimates_fromMathildePipeline.R misc/Trends/main_glm.r misc/Trends/plot_spTrends.R misc/Trends/sampleCarre.R misc/Trends/simple_glm.r misc/Trends_Indicator.R misc/UdpateGI.R misc/Valid/BBSmissing.R misc/Valid/DiagValidActiviteScore.R misc/Valid/DiagValidObs.R misc/Valid/DoubleCheckObservers.R misc/Valid/Fichiers_export.R misc/Valid/FilToDtype_DataL.R misc/Valid/ImportValid.R misc/Valid/MissingSpeciesValid.R misc/Valid/OriginalityPartNonValid.R misc/Valid/RematchValid.R misc/Valid/RematchValidV.R misc/Valid/SelFichiersMissingSp.R misc/Valid/SelFichiersOriginality.R misc/Valid/SelFichiersShifts.R misc/Valid/ShiftScoresSpeciesValid.R misc/Valid/StrataRelativeScoresSp.R misc/Valid/StrataScoresSp.R misc/Valid/Valid_part.R misc/Valid/Wav_Infos.R misc/Valid/ovtCevt.R misc/Valid/ovtFillEspece.R misc/Valid/wav_rawdata.R misc/VeilleSentinelles.R misc/VideProspe.R misc/Wac_wav.R misc/Weather_anomalies.R misc/calcul_tx_erreur.R misc/check_purge.R misc/combineGIS.R misc/decimPourC2M.R

misc/desktop.ini

misc/extr_PF_ActNuit (1).R misc/extr_PF_ActNuit.R misc/extr_PF_DataLP (1).R misc/extr_PF_DataLP.R misc/extr_PF_PhenoH.R misc/extr_RP_ActTron (1).R misc/extr_RP_ActTron.R misc/extr_RP_DataLP.R misc/extr_newBDD_pourcartoSp.R misc/extr_newBDD_validations_filtrees.R misc/f_GLM_predictplot.R misc/f_combineGIS.R misc/formatNCEP.R

misc/gbif/Bioclim2.5

misc/gbif/Bioclim2_5

misc/gbif/Bioclim2_5.R misc/gbif/BioclimGross.R misc/gbif/CompareScores.R misc/gbif/CompilDate_Groups.R misc/gbif/Compil_DateGroups.R misc/gbif/DataGroup_PA_forcluster.R misc/gbif/DataGroup_rawdata.R misc/gbif/DateAll_Sel.R misc/gbif/DetectTooSmallGroups.R misc/gbif/Inat_check.R misc/gbif/ListAll_DataDate.R misc/gbif/ListDatePb.R misc/gbif/MostProbableTaxa.R misc/gbif/PPPS.R misc/gbif/PT_short.R misc/gbif/Pmax_rawdatafiltered.R misc/gbif/Pmax_rawdatafiltered_pergroups.R misc/gbif/Pmax_rawdatanonfiltered.R misc/gbif/Pmax_rawdatanonfiltered_pergroups.R misc/gbif/PredPres_OccCoord.R misc/gbif/PredTab_EsPro.R misc/gbif/PredTab_SelPol.R misc/gbif/PredTab_WeightedScores.R misc/gbif/PrioCoord.R misc/gbif/PrioCoordsimple.R misc/gbif/PriorityTaxa.R misc/gbif/RawCBN34.R misc/gbif/RawCBN3430.R misc/gbif/Raw_listsp.R misc/gbif/Raw_shorten.R misc/gbif/Rawgbif_CoordsU.R misc/gbif/Rawgbif_hours.R misc/gbif/Rawgbif_perdate_predgroups.R misc/gbif/Rawgbif_rf.R misc/gbif/Rawgbif_simplified.R misc/gbif/Rawgbif_summary.R misc/gbif/STtot.R misc/gbif/Score_SP.R misc/gbif/ScoresSeasonDest.R misc/gbif/ScoresSeasonDestAll.R misc/gbif/TargetCBN34.R misc/gbif/csv_DataAgg.R misc/gbif/maps_kml.R misc/gbif_AllLists (1).R misc/gbif_AllLists.R misc/gbif_listsp (1).R misc/gbif_listsp.R misc/gbif_pheno.R misc/gites/PhenoGite.R misc/gites/RefGites_gisSp.R misc/gites/SpNuit_checkGites.R

misc/horodatage.py

misc/merge_SpLists.R misc/mongo/CheckConfidential_Wav.R misc/mongo/CheckNocturnal_Wav.R misc/mongo/Part_fillMissingPoints.R misc/mongo/change_user.R misc/mongo/clean_sites_without_participant.R misc/mongo/clean_specific_sites.R misc/mongo/create_newuser.r misc/mongo/create_participations.R misc/mongo/export_observations.R misc/mongo/find_points.r misc/mongo/get_participations.R misc/mongo/get_users.R misc/mongo/suppress_participations.R misc/p_export_forLinux.R misc/part_FileSel.R misc/part_TagMaxTaxon.R misc/pourKevinD.R misc/pourLionelBruhat.R misc/pourPartSelG (1).R misc/pourPartSelG.R misc/power analysis.r misc/prospe/gen_heuresprospe.R misc/splitExportTot.R misc/summaryVigieChiroParticipationPerYear.R misc/testData.R misc/testLagopedeAlpin.R misc/transferts_sps_irods.r misc/verbatim/DetailsRespRF_TabDetail.R misc/verbatim/DiagTC.R misc/verbatim/PredRaw_PredCorr.R misc/verbatim/SummaryKaleidoscopeUS.R misc/verbatim/Veolia_PartRename.R misc/verbatim/Veolia_pimport.R misc/verbatim/Veolia_untar.R misc/verbatim/Verbatim_summary.R

misc/~$EasyMerging.pptx

observations-200667.csv

tests/testthat.R tests/testthat/test-f_biodiv_modgis.R tic.R

vignettes/.gitignore

vignettes/f_biodiv_modgis.Rmd

cesco-lab/Vigie-Chiro_scripts documentation built on April 4, 2024, 4:27 a.m.