├── .DS_Store ├── .RData ├── .Rproj.user ├── 4FA1DB9E │ ├── console06 │ │ └── INDEX001 │ ├── pcs │ │ ├── files-pane.pper │ │ ├── source-pane.pper │ │ ├── windowlayoutstate.pper │ │ └── workbench-pane.pper │ ├── rmd-outputs │ ├── saved_source_markers │ └── sources │ │ ├── per │ │ └── t │ │ │ ├── 87FE2A5C │ │ │ ├── 87FE2A5C-contents │ │ │ ├── F4298C1F │ │ │ └── F4298C1F-contents │ │ └── prop │ │ ├── 1BA16AF8 │ │ ├── 1EFDDD5 │ │ ├── 20E9FC2E │ │ ├── 2A212A37 │ │ ├── 33247A5E │ │ ├── 3AC92D30 │ │ ├── 3E780115 │ │ ├── 3F3EE4E7 │ │ ├── 42E45175 │ │ ├── 4930C446 │ │ ├── 57ADEB25 │ │ ├── 6FAA51C5 │ │ ├── 75E1C773 │ │ ├── A036C50A │ │ ├── B1B456B0 │ │ ├── B1DB08D1 │ │ ├── B7219BD0 │ │ ├── BA426A09 │ │ ├── BC080621 │ │ ├── C1686D09 │ │ ├── D383FD00 │ │ ├── E554B1E │ │ ├── E8AEFCA5 │ │ ├── F3631C96 │ │ ├── F613F187 │ │ ├── FA5ED651 │ │ └── INDEX └── shared │ └── notebooks │ ├── patch-chunk-names │ └── paths ├── .gitignore ├── README.md ├── RScripts ├── .RData ├── .RDataTmp ├── SoilHealthDB_quality_check.R └── functions.R ├── SHDB.Rmd ├── SoilHealthDB.Rproj ├── data ├── SoilHealthDB_V0.csv ├── SoilHealthDB_V1.csv ├── SoilHealthDB_V2.csv ├── SoilHealthDB_V2.xlsx ├── WRB │ ├── WRB.png │ ├── wrb.csv │ ├── wsrc_.tfw │ ├── wsrc_.tif │ ├── wsrc_.tif.aux.xml │ ├── wsrc_.tif.ovr │ ├── wsrc_.tif.vat.cpg │ └── wsrc_.tif.vat.dbf └── other_data │ ├── DSMW_Point.csv │ ├── DSMW_SoilType.csv │ ├── GlobalSoilHealthDatabase_Reference.docx │ ├── MU_GLOBAL.nc4 │ ├── lat.csv │ ├── lon.csv │ └── summarized_climate.csv └── outputs ├── 1. latitude and longitude by country check.csv ├── Figure 1.pdf ├── Figure 1.tiff ├── Figure 2-3 SamplingDepth.pptx ├── Figure 2.png ├── Figure 3.png ├── Figure 4.jpg ├── Figure 4.pdf ├── Figure 5.pdf ├── Figure 5.tiff ├── QC1. Backgroud information histgram.pdf ├── QC2. Soil health indicator histgram.pdf ├── SoilHealthCalculator_SI.docx ├── SoilHealth_Indicator_Sum_Reshape.csv └── TableS1.SoilHealth_indicator_ranges.xlsx /.DS_Store: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/jinshijian/SoilHealthDB/HEAD/.DS_Store -------------------------------------------------------------------------------- /.RData: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/jinshijian/SoilHealthDB/HEAD/.RData -------------------------------------------------------------------------------- /.Rproj.user/4FA1DB9E/console06/INDEX001: -------------------------------------------------------------------------------- 1 | [] -------------------------------------------------------------------------------- /.Rproj.user/4FA1DB9E/pcs/files-pane.pper: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/jinshijian/SoilHealthDB/HEAD/.Rproj.user/4FA1DB9E/pcs/files-pane.pper -------------------------------------------------------------------------------- /.Rproj.user/4FA1DB9E/pcs/source-pane.pper: -------------------------------------------------------------------------------- 1 | { 2 | "activeTab" : 1 3 | } -------------------------------------------------------------------------------- /.Rproj.user/4FA1DB9E/pcs/windowlayoutstate.pper: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/jinshijian/SoilHealthDB/HEAD/.Rproj.user/4FA1DB9E/pcs/windowlayoutstate.pper -------------------------------------------------------------------------------- /.Rproj.user/4FA1DB9E/pcs/workbench-pane.pper: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/jinshijian/SoilHealthDB/HEAD/.Rproj.user/4FA1DB9E/pcs/workbench-pane.pper -------------------------------------------------------------------------------- /.Rproj.user/4FA1DB9E/rmd-outputs: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/jinshijian/SoilHealthDB/HEAD/.Rproj.user/4FA1DB9E/rmd-outputs -------------------------------------------------------------------------------- /.Rproj.user/4FA1DB9E/saved_source_markers: -------------------------------------------------------------------------------- 1 | {"active_set":"","sets":[]} -------------------------------------------------------------------------------- /.Rproj.user/4FA1DB9E/sources/per/t/87FE2A5C: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/jinshijian/SoilHealthDB/HEAD/.Rproj.user/4FA1DB9E/sources/per/t/87FE2A5C -------------------------------------------------------------------------------- /.Rproj.user/4FA1DB9E/sources/per/t/87FE2A5C-contents: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/jinshijian/SoilHealthDB/HEAD/.Rproj.user/4FA1DB9E/sources/per/t/87FE2A5C-contents -------------------------------------------------------------------------------- /.Rproj.user/4FA1DB9E/sources/per/t/F4298C1F: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/jinshijian/SoilHealthDB/HEAD/.Rproj.user/4FA1DB9E/sources/per/t/F4298C1F -------------------------------------------------------------------------------- /.Rproj.user/4FA1DB9E/sources/per/t/F4298C1F-contents: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/jinshijian/SoilHealthDB/HEAD/.Rproj.user/4FA1DB9E/sources/per/t/F4298C1F-contents -------------------------------------------------------------------------------- /.Rproj.user/4FA1DB9E/sources/prop/1BA16AF8: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/jinshijian/SoilHealthDB/HEAD/.Rproj.user/4FA1DB9E/sources/prop/1BA16AF8 -------------------------------------------------------------------------------- /.Rproj.user/4FA1DB9E/sources/prop/1EFDDD5: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/jinshijian/SoilHealthDB/HEAD/.Rproj.user/4FA1DB9E/sources/prop/1EFDDD5 -------------------------------------------------------------------------------- /.Rproj.user/4FA1DB9E/sources/prop/20E9FC2E: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/jinshijian/SoilHealthDB/HEAD/.Rproj.user/4FA1DB9E/sources/prop/20E9FC2E -------------------------------------------------------------------------------- /.Rproj.user/4FA1DB9E/sources/prop/2A212A37: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/jinshijian/SoilHealthDB/HEAD/.Rproj.user/4FA1DB9E/sources/prop/2A212A37 -------------------------------------------------------------------------------- /.Rproj.user/4FA1DB9E/sources/prop/33247A5E: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/jinshijian/SoilHealthDB/HEAD/.Rproj.user/4FA1DB9E/sources/prop/33247A5E -------------------------------------------------------------------------------- /.Rproj.user/4FA1DB9E/sources/prop/3AC92D30: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/jinshijian/SoilHealthDB/HEAD/.Rproj.user/4FA1DB9E/sources/prop/3AC92D30 -------------------------------------------------------------------------------- /.Rproj.user/4FA1DB9E/sources/prop/3E780115: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/jinshijian/SoilHealthDB/HEAD/.Rproj.user/4FA1DB9E/sources/prop/3E780115 -------------------------------------------------------------------------------- /.Rproj.user/4FA1DB9E/sources/prop/3F3EE4E7: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/jinshijian/SoilHealthDB/HEAD/.Rproj.user/4FA1DB9E/sources/prop/3F3EE4E7 -------------------------------------------------------------------------------- /.Rproj.user/4FA1DB9E/sources/prop/42E45175: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/jinshijian/SoilHealthDB/HEAD/.Rproj.user/4FA1DB9E/sources/prop/42E45175 -------------------------------------------------------------------------------- /.Rproj.user/4FA1DB9E/sources/prop/4930C446: -------------------------------------------------------------------------------- 1 | { 2 | } -------------------------------------------------------------------------------- /.Rproj.user/4FA1DB9E/sources/prop/57ADEB25: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/jinshijian/SoilHealthDB/HEAD/.Rproj.user/4FA1DB9E/sources/prop/57ADEB25 -------------------------------------------------------------------------------- /.Rproj.user/4FA1DB9E/sources/prop/6FAA51C5: -------------------------------------------------------------------------------- 1 | { 2 | } -------------------------------------------------------------------------------- /.Rproj.user/4FA1DB9E/sources/prop/75E1C773: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/jinshijian/SoilHealthDB/HEAD/.Rproj.user/4FA1DB9E/sources/prop/75E1C773 -------------------------------------------------------------------------------- /.Rproj.user/4FA1DB9E/sources/prop/A036C50A: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/jinshijian/SoilHealthDB/HEAD/.Rproj.user/4FA1DB9E/sources/prop/A036C50A -------------------------------------------------------------------------------- /.Rproj.user/4FA1DB9E/sources/prop/B1B456B0: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/jinshijian/SoilHealthDB/HEAD/.Rproj.user/4FA1DB9E/sources/prop/B1B456B0 -------------------------------------------------------------------------------- /.Rproj.user/4FA1DB9E/sources/prop/B1DB08D1: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/jinshijian/SoilHealthDB/HEAD/.Rproj.user/4FA1DB9E/sources/prop/B1DB08D1 -------------------------------------------------------------------------------- /.Rproj.user/4FA1DB9E/sources/prop/B7219BD0: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/jinshijian/SoilHealthDB/HEAD/.Rproj.user/4FA1DB9E/sources/prop/B7219BD0 -------------------------------------------------------------------------------- /.Rproj.user/4FA1DB9E/sources/prop/BA426A09: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/jinshijian/SoilHealthDB/HEAD/.Rproj.user/4FA1DB9E/sources/prop/BA426A09 -------------------------------------------------------------------------------- /.Rproj.user/4FA1DB9E/sources/prop/BC080621: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/jinshijian/SoilHealthDB/HEAD/.Rproj.user/4FA1DB9E/sources/prop/BC080621 -------------------------------------------------------------------------------- /.Rproj.user/4FA1DB9E/sources/prop/C1686D09: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/jinshijian/SoilHealthDB/HEAD/.Rproj.user/4FA1DB9E/sources/prop/C1686D09 -------------------------------------------------------------------------------- /.Rproj.user/4FA1DB9E/sources/prop/D383FD00: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/jinshijian/SoilHealthDB/HEAD/.Rproj.user/4FA1DB9E/sources/prop/D383FD00 -------------------------------------------------------------------------------- /.Rproj.user/4FA1DB9E/sources/prop/E554B1E: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/jinshijian/SoilHealthDB/HEAD/.Rproj.user/4FA1DB9E/sources/prop/E554B1E -------------------------------------------------------------------------------- /.Rproj.user/4FA1DB9E/sources/prop/E8AEFCA5: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/jinshijian/SoilHealthDB/HEAD/.Rproj.user/4FA1DB9E/sources/prop/E8AEFCA5 -------------------------------------------------------------------------------- /.Rproj.user/4FA1DB9E/sources/prop/F3631C96: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/jinshijian/SoilHealthDB/HEAD/.Rproj.user/4FA1DB9E/sources/prop/F3631C96 -------------------------------------------------------------------------------- /.Rproj.user/4FA1DB9E/sources/prop/F613F187: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/jinshijian/SoilHealthDB/HEAD/.Rproj.user/4FA1DB9E/sources/prop/F613F187 -------------------------------------------------------------------------------- /.Rproj.user/4FA1DB9E/sources/prop/FA5ED651: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/jinshijian/SoilHealthDB/HEAD/.Rproj.user/4FA1DB9E/sources/prop/FA5ED651 -------------------------------------------------------------------------------- /.Rproj.user/4FA1DB9E/sources/prop/INDEX: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/jinshijian/SoilHealthDB/HEAD/.Rproj.user/4FA1DB9E/sources/prop/INDEX -------------------------------------------------------------------------------- /.Rproj.user/shared/notebooks/patch-chunk-names: -------------------------------------------------------------------------------- 1 | -------------------------------------------------------------------------------- /.Rproj.user/shared/notebooks/paths: -------------------------------------------------------------------------------- 1 | /Users/jian107/Documents/PNNL/SoilHealthDB/SHDB.Rmd="5AF0E639" 2 | -------------------------------------------------------------------------------- /.gitignore: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/jinshijian/SoilHealthDB/HEAD/.gitignore -------------------------------------------------------------------------------- /README.md: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/jinshijian/SoilHealthDB/HEAD/README.md -------------------------------------------------------------------------------- /RScripts/.RData: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/jinshijian/SoilHealthDB/HEAD/RScripts/.RData -------------------------------------------------------------------------------- /RScripts/.RDataTmp: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/jinshijian/SoilHealthDB/HEAD/RScripts/.RDataTmp -------------------------------------------------------------------------------- /RScripts/SoilHealthDB_quality_check.R: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/jinshijian/SoilHealthDB/HEAD/RScripts/SoilHealthDB_quality_check.R -------------------------------------------------------------------------------- /RScripts/functions.R: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/jinshijian/SoilHealthDB/HEAD/RScripts/functions.R -------------------------------------------------------------------------------- /SHDB.Rmd: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/jinshijian/SoilHealthDB/HEAD/SHDB.Rmd -------------------------------------------------------------------------------- /SoilHealthDB.Rproj: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/jinshijian/SoilHealthDB/HEAD/SoilHealthDB.Rproj -------------------------------------------------------------------------------- /data/SoilHealthDB_V0.csv: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/jinshijian/SoilHealthDB/HEAD/data/SoilHealthDB_V0.csv -------------------------------------------------------------------------------- /data/SoilHealthDB_V1.csv: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/jinshijian/SoilHealthDB/HEAD/data/SoilHealthDB_V1.csv -------------------------------------------------------------------------------- /data/SoilHealthDB_V2.csv: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/jinshijian/SoilHealthDB/HEAD/data/SoilHealthDB_V2.csv -------------------------------------------------------------------------------- /data/SoilHealthDB_V2.xlsx: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/jinshijian/SoilHealthDB/HEAD/data/SoilHealthDB_V2.xlsx -------------------------------------------------------------------------------- /data/WRB/WRB.png: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/jinshijian/SoilHealthDB/HEAD/data/WRB/WRB.png -------------------------------------------------------------------------------- /data/WRB/wrb.csv: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/jinshijian/SoilHealthDB/HEAD/data/WRB/wrb.csv -------------------------------------------------------------------------------- /data/WRB/wsrc_.tfw: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/jinshijian/SoilHealthDB/HEAD/data/WRB/wsrc_.tfw -------------------------------------------------------------------------------- /data/WRB/wsrc_.tif: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/jinshijian/SoilHealthDB/HEAD/data/WRB/wsrc_.tif -------------------------------------------------------------------------------- /data/WRB/wsrc_.tif.aux.xml: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/jinshijian/SoilHealthDB/HEAD/data/WRB/wsrc_.tif.aux.xml -------------------------------------------------------------------------------- /data/WRB/wsrc_.tif.ovr: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/jinshijian/SoilHealthDB/HEAD/data/WRB/wsrc_.tif.ovr -------------------------------------------------------------------------------- /data/WRB/wsrc_.tif.vat.cpg: -------------------------------------------------------------------------------- 1 | UTF-8 -------------------------------------------------------------------------------- /data/WRB/wsrc_.tif.vat.dbf: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/jinshijian/SoilHealthDB/HEAD/data/WRB/wsrc_.tif.vat.dbf -------------------------------------------------------------------------------- /data/other_data/DSMW_Point.csv: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/jinshijian/SoilHealthDB/HEAD/data/other_data/DSMW_Point.csv -------------------------------------------------------------------------------- /data/other_data/DSMW_SoilType.csv: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/jinshijian/SoilHealthDB/HEAD/data/other_data/DSMW_SoilType.csv -------------------------------------------------------------------------------- /data/other_data/GlobalSoilHealthDatabase_Reference.docx: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/jinshijian/SoilHealthDB/HEAD/data/other_data/GlobalSoilHealthDatabase_Reference.docx -------------------------------------------------------------------------------- /data/other_data/MU_GLOBAL.nc4: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/jinshijian/SoilHealthDB/HEAD/data/other_data/MU_GLOBAL.nc4 -------------------------------------------------------------------------------- /data/other_data/lat.csv: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/jinshijian/SoilHealthDB/HEAD/data/other_data/lat.csv -------------------------------------------------------------------------------- /data/other_data/lon.csv: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/jinshijian/SoilHealthDB/HEAD/data/other_data/lon.csv -------------------------------------------------------------------------------- /data/other_data/summarized_climate.csv: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/jinshijian/SoilHealthDB/HEAD/data/other_data/summarized_climate.csv -------------------------------------------------------------------------------- /outputs/1. latitude and longitude by country check.csv: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/jinshijian/SoilHealthDB/HEAD/outputs/1. latitude and longitude by country check.csv -------------------------------------------------------------------------------- /outputs/Figure 1.pdf: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/jinshijian/SoilHealthDB/HEAD/outputs/Figure 1.pdf -------------------------------------------------------------------------------- /outputs/Figure 1.tiff: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/jinshijian/SoilHealthDB/HEAD/outputs/Figure 1.tiff -------------------------------------------------------------------------------- /outputs/Figure 2-3 SamplingDepth.pptx: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/jinshijian/SoilHealthDB/HEAD/outputs/Figure 2-3 SamplingDepth.pptx -------------------------------------------------------------------------------- /outputs/Figure 2.png: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/jinshijian/SoilHealthDB/HEAD/outputs/Figure 2.png -------------------------------------------------------------------------------- /outputs/Figure 3.png: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/jinshijian/SoilHealthDB/HEAD/outputs/Figure 3.png -------------------------------------------------------------------------------- /outputs/Figure 4.jpg: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/jinshijian/SoilHealthDB/HEAD/outputs/Figure 4.jpg -------------------------------------------------------------------------------- /outputs/Figure 4.pdf: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/jinshijian/SoilHealthDB/HEAD/outputs/Figure 4.pdf -------------------------------------------------------------------------------- /outputs/Figure 5.pdf: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/jinshijian/SoilHealthDB/HEAD/outputs/Figure 5.pdf -------------------------------------------------------------------------------- /outputs/Figure 5.tiff: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/jinshijian/SoilHealthDB/HEAD/outputs/Figure 5.tiff -------------------------------------------------------------------------------- /outputs/QC1. Backgroud information histgram.pdf: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/jinshijian/SoilHealthDB/HEAD/outputs/QC1. Backgroud information histgram.pdf -------------------------------------------------------------------------------- /outputs/QC2. Soil health indicator histgram.pdf: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/jinshijian/SoilHealthDB/HEAD/outputs/QC2. Soil health indicator histgram.pdf -------------------------------------------------------------------------------- /outputs/SoilHealthCalculator_SI.docx: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/jinshijian/SoilHealthDB/HEAD/outputs/SoilHealthCalculator_SI.docx -------------------------------------------------------------------------------- /outputs/SoilHealth_Indicator_Sum_Reshape.csv: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/jinshijian/SoilHealthDB/HEAD/outputs/SoilHealth_Indicator_Sum_Reshape.csv -------------------------------------------------------------------------------- /outputs/TableS1.SoilHealth_indicator_ranges.xlsx: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/jinshijian/SoilHealthDB/HEAD/outputs/TableS1.SoilHealth_indicator_ranges.xlsx --------------------------------------------------------------------------------