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8/2", "2.5B 8/3", "2.5B 8/4", "2.5B 9/1", "2.5B 9/2", "2.5B 9/3", "2.5B 9/4", "2.5B 9/5", "2.5B 9/6", "2.5B 9/7", "2.5B 9/8", "2.5BG 2.5/1", "2.5BG 2.5/10", "2.5BG 2.5/2", "2.5BG 2.5/3", "2.5BG 2.5/4", "2.5BG 2.5/5", "2.5BG 2.5/6", "2.5BG 2.5/7", "2.5BG 2.5/8", "2.5BG 2.5/9", "2.5BG 2/1", "2.5BG 2/2", "2.5BG 2/3", "2.5BG 2/4", "2.5BG 2/5", "2.5BG 2/6", "2.5BG 3/1", "2.5BG 3/2", "2.5BG 3/3", "2.5BG 3/4", "2.5BG 3/5", "2.5BG 3/6", "2.5BG 3/7", "2.5BG 3/8", "2.5BG 4/1", "2.5BG 4/2", "2.5BG 4/3", "2.5BG 4/4", "2.5BG 4/5", "2.5BG 4/6", "2.5BG 4/7", "2.5BG 4/8", "2.5BG 5/1", "2.5BG 5/10", "2.5BG 5/2", "2.5BG 5/3", "2.5BG 5/4", "2.5BG 5/5", "2.5BG 5/6", "2.5BG 5/7", "2.5BG 5/8", "2.5BG 5/9", "2.5BG 6/1", "2.5BG 6/10", "2.5BG 6/2", "2.5BG 6/3", "2.5BG 6/4", "2.5BG 6/5", "2.5BG 6/6", "2.5BG 6/7", "2.5BG 6/8", "2.5BG 6/9", "2.5BG 7/1", "2.5BG 7/2", "2.5BG 7/3", "2.5BG 7/4", "2.5BG 7/5", "2.5BG 7/6", "2.5BG 7/7", "2.5BG 7/8", "2.5BG 8.5/1", "2.5BG 8.5/10", "2.5BG 8.5/2", "2.5BG 8.5/3", "2.5BG 8.5/4", "2.5BG 8.5/5", "2.5BG 8.5/6", "2.5BG 8.5/7", "2.5BG 8.5/8", "2.5BG 8.5/9", "2.5BG 8/1", "2.5BG 8/2", "2.5BG 8/3", "2.5BG 8/4", "2.5BG 8/5", "2.5BG 8/6", "2.5BG 9/1", "2.5BG 9/10", "2.5BG 9/2", "2.5BG 9/3", "2.5BG 9/4", "2.5BG 9/5", "2.5BG 9/6", "2.5BG 9/7", "2.5BG 9/8", "2.5BG 9/9", "2.5G 2.5/1", "2.5G 2.5/10", "2.5G 2.5/2", "2.5G 2.5/3", "2.5G 2.5/4", "2.5G 2.5/5", "2.5G 2.5/6", "2.5G 2.5/7", "2.5G 2.5/8", "2.5G 2.5/9", "2.5G 2/1", "2.5G 2/2", "2.5G 2/3", "2.5G 2/4", "2.5G 3/1", "2.5G 3/10", "2.5G 3/2", "2.5G 3/3", "2.5G 3/4", "2.5G 3/5", "2.5G 3/6", "2.5G 3/7", "2.5G 3/8", "2.5G 3/9", "2.5G 4/1", "2.5G 4/10", "2.5G 4/2", "2.5G 4/3", "2.5G 4/4", "2.5G 4/5", "2.5G 4/6", "2.5G 4/7", "2.5G 4/8", "2.5G 4/9", "2.5G 5/1", "2.5G 5/10", "2.5G 5/11", "2.5G 5/12", "2.5G 5/2", "2.5G 5/3", "2.5G 5/4", "2.5G 5/5", "2.5G 5/6", "2.5G 5/7", "2.5G 5/8", "2.5G 5/9", "2.5G 6/1", "2.5G 6/10", "2.5G 6/2", "2.5G 6/3", "2.5G 6/4", "2.5G 6/5", "2.5G 6/6", "2.5G 6/7", "2.5G 6/8", "2.5G 6/9", "2.5G 7/1", "2.5G 7/10", "2.5G 7/2", "2.5G 7/3", "2.5G 7/4", "2.5G 7/5", "2.5G 7/6", "2.5G 7/7", "2.5G 7/8", "2.5G 7/9", "2.5G 8.5/1", "2.5G 8.5/10", "2.5G 8.5/2", "2.5G 8.5/3", "2.5G 8.5/4", "2.5G 8.5/5", "2.5G 8.5/6", "2.5G 8.5/7", "2.5G 8.5/8", "2.5G 8.5/9", "2.5G 8/1", "2.5G 8/2", "2.5G 8/3", "2.5G 8/4", "2.5G 8/5", "2.5G 8/6", "2.5G 8/7", "2.5G 8/8", "2.5G 9/1", "2.5G 9/10", "2.5G 9/2", "2.5G 9/3", "2.5G 9/4", "2.5G 9/5", "2.5G 9/6", "2.5G 9/7", "2.5G 9/8", "2.5G 9/9", "2.5GY 2.5/1", "2.5GY 2.5/10", "2.5GY 2.5/11", "2.5GY 2.5/12", "2.5GY 2.5/2", "2.5GY 2.5/3", "2.5GY 2.5/4", "2.5GY 2.5/5", "2.5GY 2.5/6", "2.5GY 2.5/7", "2.5GY 2.5/8", "2.5GY 2.5/9", "2.5GY 2/2", "2.5GY 3/1", "2.5GY 3/2", "2.5GY 3/3", "2.5GY 3/4", "2.5GY 4/1", "2.5GY 4/2", "2.5GY 4/3", "2.5GY 4/4", "2.5GY 4/5", "2.5GY 4/6", "2.5GY 5/1", "2.5GY 5/2", "2.5GY 5/3", "2.5GY 5/4", "2.5GY 5/5", "2.5GY 5/6", "2.5GY 5/7", "2.5GY 5/8", "2.5GY 6/1", "2.5GY 6/10", "2.5GY 6/2", "2.5GY 6/3", "2.5GY 6/4", "2.5GY 6/5", "2.5GY 6/6", "2.5GY 6/7", "2.5GY 6/8", "2.5GY 6/9", "2.5GY 7/1", "2.5GY 7/10", "2.5GY 7/11", "2.5GY 7/12", "2.5GY 7/2", "2.5GY 7/3", "2.5GY 7/4", "2.5GY 7/5", "2.5GY 7/6", "2.5GY 7/7", "2.5GY 7/8", "2.5GY 7/9", "2.5GY 8.5/1", "2.5GY 8.5/10", "2.5GY 8.5/11", "2.5GY 8.5/12", "2.5GY 8.5/2", "2.5GY 8.5/3", "2.5GY 8.5/4", "2.5GY 8.5/5", "2.5GY 8.5/6", "2.5GY 8.5/7", "2.5GY 8.5/8", "2.5GY 8.5/9", "2.5GY 8/1", "2.5GY 8/10", "2.5GY 8/11", "2.5GY 8/12", "2.5GY 8/2", "2.5GY 8/3", "2.5GY 8/4", "2.5GY 8/5", "2.5GY 8/6", "2.5GY 8/7", "2.5GY 8/8", "2.5GY 8/9", "2.5GY 9/1", "2.5GY 9/10", "2.5GY 9/11", "2.5GY 9/12", "2.5GY 9/2", "2.5GY 9/3", "2.5GY 9/4", "2.5GY 9/5", "2.5GY 9/6", "2.5GY 9/7", "2.5GY 9/8", "2.5GY 9/9", "2.5P 2.5/1", "2.5P 2.5/10", "2.5P 2.5/2", "2.5P 2.5/3", "2.5P 2.5/4", "2.5P 2.5/5", "2.5P 2.5/6", "2.5P 2.5/7", "2.5P 2.5/8", "2.5P 2.5/9", "2.5P 2/1", "2.5P 2/10", "2.5P 2/2", "2.5P 2/3", "2.5P 2/4", "2.5P 2/5", "2.5P 2/6", "2.5P 2/7", "2.5P 2/8", "2.5P 2/9", "2.5P 3/1", "2.5P 3/10", "2.5P 3/2", "2.5P 3/3", "2.5P 3/4", "2.5P 3/5", "2.5P 3/6", "2.5P 3/7", "2.5P 3/8", "2.5P 3/9", "2.5P 4/1", "2.5P 4/10", "2.5P 4/11", "2.5P 4/12", "2.5P 4/2", "2.5P 4/3", "2.5P 4/4", "2.5P 4/5", "2.5P 4/6", "2.5P 4/7", "2.5P 4/8", "2.5P 4/9", "2.5P 5/1", "2.5P 5/10", "2.5P 5/2", "2.5P 5/3", "2.5P 5/4", "2.5P 5/5", "2.5P 5/6", "2.5P 5/7", "2.5P 5/8", "2.5P 5/9", "2.5P 6/1", "2.5P 6/2", "2.5P 6/3", "2.5P 6/4", "2.5P 6/5", "2.5P 6/6", "2.5P 6/7", "2.5P 6/8", "2.5P 7/1", "2.5P 7/2", "2.5P 7/3", "2.5P 7/4", "2.5P 7/5", "2.5P 7/6", "2.5P 7/7", "2.5P 7/8", "2.5P 8.5/1", "2.5P 8.5/10", "2.5P 8.5/2", "2.5P 8.5/3", "2.5P 8.5/4", "2.5P 8.5/5", "2.5P 8.5/6", "2.5P 8.5/7", "2.5P 8.5/8", "2.5P 8.5/9", "2.5P 8/1", "2.5P 8/2", "2.5P 8/3", "2.5P 8/4", "2.5P 9/1", "2.5P 9/10", "2.5P 9/2", "2.5P 9/3", "2.5P 9/4", "2.5P 9/5", "2.5P 9/6", "2.5P 9/7", "2.5P 9/8", "2.5P 9/9", "2.5PB 2.5/1", "2.5PB 2.5/10", "2.5PB 2.5/2", "2.5PB 2.5/3", "2.5PB 2.5/4", "2.5PB 2.5/5", "2.5PB 2.5/6", "2.5PB 2.5/7", "2.5PB 2.5/8", "2.5PB 2.5/9", "2.5PB 2/1", "2.5PB 2/2", "2.5PB 2/3", "2.5PB 2/4", "2.5PB 2/5", "2.5PB 2/6", "2.5PB 3/1", "2.5PB 3/10", "2.5PB 3/2", "2.5PB 3/3", "2.5PB 3/4", "2.5PB 3/5", "2.5PB 3/6", "2.5PB 3/7", "2.5PB 3/8", "2.5PB 3/9", "2.5PB 4/1", "2.5PB 4/10", "2.5PB 4/2", "2.5PB 4/3", "2.5PB 4/4", "2.5PB 4/5", "2.5PB 4/6", "2.5PB 4/7", "2.5PB 4/8", "2.5PB 4/9", "2.5PB 5/1", "2.5PB 5/10", "2.5PB 5/11", "2.5PB 5/12", "2.5PB 5/2", "2.5PB 5/3", "2.5PB 5/4", "2.5PB 5/5", "2.5PB 5/6", "2.5PB 5/7", "2.5PB 5/8", "2.5PB 5/9", "2.5PB 6/1", "2.5PB 6/10", "2.5PB 6/2", "2.5PB 6/3", "2.5PB 6/4", "2.5PB 6/5", "2.5PB 6/6", "2.5PB 6/7", "2.5PB 6/8", "2.5PB 6/9", "2.5PB 7/1", "2.5PB 7/2", "2.5PB 7/3", "2.5PB 7/4", "2.5PB 7/5", "2.5PB 7/6", "2.5PB 7/7", "2.5PB 7/8", "2.5PB 8.5/1", "2.5PB 8.5/10", "2.5PB 8.5/2", "2.5PB 8.5/3", "2.5PB 8.5/4", "2.5PB 8.5/5", "2.5PB 8.5/6", "2.5PB 8.5/7", "2.5PB 8.5/8", "2.5PB 8.5/9", "2.5PB 8/1", "2.5PB 8/2", "2.5PB 8/3", "2.5PB 8/4", "2.5PB 8/5", "2.5PB 8/6", "2.5PB 9/1", "2.5PB 9/10", "2.5PB 9/2", "2.5PB 9/3", "2.5PB 9/4", "2.5PB 9/5", "2.5PB 9/6", "2.5PB 9/7", "2.5PB 9/8", "2.5PB 9/9", "2.5R 2.5/1", "2.5R 2.5/10", "2.5R 2.5/11", "2.5R 2.5/12", "2.5R 2.5/13", "2.5R 2.5/14", "2.5R 2.5/2", "2.5R 2.5/3", "2.5R 2.5/4", "2.5R 2.5/5", "2.5R 2.5/6", "2.5R 2.5/7", "2.5R 2.5/8", "2.5R 2.5/9", "2.5R 2/1", "2.5R 2/2", "2.5R 2/3", "2.5R 2/4", "2.5R 2/5", "2.5R 2/6", "2.5R 2/7", "2.5R 2/8", "2.5R 3/1", "2.5R 3/10", "2.5R 3/2", "2.5R 3/3", "2.5R 3/4", "2.5R 3/5", "2.5R 3/6", "2.5R 3/7", "2.5R 3/8", "2.5R 3/9", "2.5R 4/1", "2.5R 4/10", "2.5R 4/11", "2.5R 4/12", "2.5R 4/13", "2.5R 4/14", "2.5R 4/2", "2.5R 4/3", "2.5R 4/4", "2.5R 4/5", "2.5R 4/6", "2.5R 4/7", "2.5R 4/8", "2.5R 4/9", "2.5R 5/1", "2.5R 5/10", "2.5R 5/11", "2.5R 5/12", "2.5R 5/13", "2.5R 5/14", "2.5R 5/2", "2.5R 5/3", "2.5R 5/4", "2.5R 5/5", "2.5R 5/6", "2.5R 5/7", "2.5R 5/8", "2.5R 5/9", "2.5R 6/1", "2.5R 6/10", "2.5R 6/11", "2.5R 6/12", "2.5R 6/2", "2.5R 6/3", "2.5R 6/4", "2.5R 6/5", "2.5R 6/6", "2.5R 6/7", "2.5R 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"title": "Soil Physical and Chemical Data Related to Studies in the Sierra Nevada Mountains, CA, USA.", "object": "sierraTransect", "file": "sierraTransect.rda", "class": [ "SoilProfileCollection" ], "fields": [], "table": false, "tojson": false }, { "name": "soil_minerals", "title": "Munsell Colors of Common Soil Minerals", "object": "soil_minerals", "file": "soil_minerals.rda", "class": [ "data.frame" ], "fields": [ "mineral", "color", "hue", "value", "chroma" ], "rows": 20, "table": true, "tojson": true }, { "name": "soiltexture", "title": "Lookup tables for sand, silt, clay, texture class, and textural modifiers.", "object": "soiltexture", "file": "soiltexture.rda", "class": [ "list" ], "fields": [], "table": false, "tojson": true }, { "name": "sp1", "title": "Soil Profile Data Example 1", "object": "sp1", "file": "sp1.rda", "class": [ "data.frame" ], "fields": [ "group", "id", "top", "bottom", "bound_distinct", "bound_topography", "name", "texture", "prop", "structure_grade", "structure_size", "structure_type", "stickiness", "plasticity", "field_ph", "hue", "value", "chroma" ], "rows": 60, "table": true, "tojson": true }, { "name": "sp2", "title": "Honcut Creek Soil Profile Data", "object": "sp2", "file": "sp2.rda", "class": [ "data.frame" ], "fields": [ "id", "surface", "top", "bottom", "bound_distinct", "bound_topography", "name", "texture", "prop", "structure_grade", "structure_size", "structure_type", "stickiness", "plasticity", "field_ph", "hue", "value", "chroma", "r", "g", "b", "soil_color" ], "rows": 154, "table": true, "tojson": true }, { "name": "sp3", "title": "Soil Profile Data Example 3", "object": "sp3", "file": "sp3.rda", "class": [ "data.frame" ], "fields": [ "id", "top", "bottom", "clay", "cec", "ph", "tc", "hue", "value", "chroma", "mid", "ln_tc", "L", "A", "B", "name", "soil_color" ], "rows": 46, "table": true, "tojson": true }, { "name": "sp4", "title": "Soil Chemical Data from Serpentinitic Soils of California", "object": "sp4", "file": "sp4.rda", "class": [ "data.frame" ], "fields": [ "id", "name", "top", "bottom", "K", "Mg", "Ca", "CEC_7", "ex_Ca_to_Mg", "sand", "silt", "clay", "CF" ], "rows": 30, "table": true, "tojson": true }, { "name": "sp5", "title": "Sample Soil Database #5", "object": "sp5", "file": "sp5.rda", "class": [ "SoilProfileCollection" ], "fields": [], "table": false, "tojson": false }, { "name": "sp6", "title": "Soil Physical and Chemical Data from Manganiferous Soils", "object": "sp6", "file": "sp6.rda", "class": [ "data.frame" ], "fields": [ "id", "name", "top", "bottom", "color", "texture", "sand", "silt", "clay", "Fe", "Mn", "C", "pH", "Db" ], "rows": 64, "table": true, "tojson": true }, { "name": "SPC.with.overlap", "title": "Example SoilProfileCollection with Overlapping Horizons", "object": "SPC.with.overlap", "file": "SPC.with.overlap.rda", "class": [ "SoilProfileCollection" ], "fields": [], "table": false, "tojson": false }, { "name": "spectral.reference", "title": "Standard Illuminants and Observers", "object": "spectral.reference", "file": "spectral.reference.rda", "class": [ "data.frame" ], "fields": [ "w", "D65", "F2", "xbar_2", "ybar_2", "zbar_2", "xbar_10", "ybar_10", "zbar_10" ], "rows": 71, "table": true, "tojson": true }, { "name": "traditionalColorNames", "title": "Traditional Soil Color Names", "object": "traditionalColorNames", "file": "traditionalColorNames.rda", "class": [ "data.frame" ], "fields": [ "munsell", "traditional_name" ], "rows": 482, "table": true, "tojson": true }, { "name": "us.state.soils", "title": "US State Soils", "object": "us.state.soils", "file": "us.state.soils.rda", "class": [ "data.frame" ], "fields": [ "state", "abbreviated", "series" ], "rows": 52, "table": true, "tojson": true }, { "name": "wilson2022", "title": "Example Data from Wilson et al. 2022", "object": "wilson2022", "file": "wilson2022.rda", "class": [ "SoilProfileCollection" ], "fields": [], "table": false, "tojson": false } ], "_help": [ { "page": "aqp-package", "title": "Algorithms for Quantitative Pedology", "topics": [ "aqp-package", "aqp", "aqp.env" ] }, { "page": "dot-colorSig2PerceptualDistMat", "title": "Interpret a color signature containing color groups of CIELAB coordinates using perceptual distance via CIE dE00", "topics": [ ".colorSig2PerceptualDistMat" ] }, { "page": "dot-detectColorSpec", "title": "Detect color specification from a vector of values, or a matrix of color coordinates", "topics": [ ".detectColorSpec" ] }, { "page": "singlebracket", "title": "Matrix/data.frame-like access to profiles and horizons in a SoilProfileCollection", "topics": [ "[,SoilProfileCollection-method" ] }, { "page": "doublebracket", "title": "Get column of horizon or site data in a SoilProfileCollection", "topics": [ "[[", "[[,SoilProfileCollection,ANY,ANY-method", "[[,SoilProfileCollection,ANY-method", "[[,SoilProfileCollection-method" ] }, { "page": "doublebracket-set", "title": "Add or change column of horizon or site data in a SoilProfileCollection", "topics": [ "[[<-", "[[<-,SoilProfileCollection,ANY,ANY-method", "[[<-,SoilProfileCollection-method" ] }, { "page": "dollarsign", "title": "Get data from column of horizon or site data in a SoilProfileCollection", "topics": [ "$", "$,SoilProfileCollection-method" ] }, { "page": "dollarsign-set", "title": "Set data in column of horizon or site data in a SoilProfileCollection", "topics": [ "$<-", "$<-,SoilProfileCollection-method" ] }, { "page": "accumulateDepths", "title": "Accumulate horizon depths, and reflect reversed depths, relative to new datum", "topics": [ "accumulateDepths" ] }, { "page": "addBracket", "title": "Add Depth Brackets", "topics": [ "addBracket" ] }, { "page": "addDiagnosticBracket", "title": "Annotate Diagnostic Features", "topics": [ "addDiagnosticBracket" ] }, { "page": "addVolumeFraction", "title": "Symbolize Volume Fraction within a Soil Profile Collection Plot", "topics": [ "addVolumeFraction" ] }, { "page": "aggregateColor", "title": "Summarize Soil Colors", "topics": [ "aggregateColor" ] }, { "page": "aggregateColorPlot", "title": "Plot aggregate soil color data", "topics": [ "aggregateColorPlot" ] }, { "page": "aggregateSoilDepth", "title": "Probabilistic Estimation of Soil Depth within Groups", "topics": [ "aggregateSoilDepth" ] }, { "page": "alignTransect", "title": "Calculate Relative Positions from Transect Data", "topics": [ "alignTransect" ] }, { "page": "allocate", "title": "Allocate soil properties within various classification systems.", "topics": [ "allocate" ] }, { "page": "aqp_df_class", "title": "Get aqp_df_class entry from metadata or return a safe value.", "topics": [ "aqp_df_class", "aqp_df_class,SoilProfileCollection-method", "aqp_df_class<-", "aqp_df_class<-,SoilProfileCollection-method" ] }, { "page": "argillic.clay.increase.depth", "title": "Return upper boundary of argillic horizon", "topics": [ "argillic.clay.increase.depth" ] }, { "page": "coercion-methods", "title": "Coerce SoilProfileCollection with 'as()'", "topics": [ "as", "as,SoilProfileCollection-method", "as.data.frame,SoilProfileCollection-method" ] }, { "page": "barron.torrent.redness.LAB", "title": "Barron & Torrent (1986) Redness Index in LAB color space", "topics": [ "barron.torrent.redness.LAB" ] }, { "page": "bootstrapSoilTexture", "title": "Bootstrap Soil Texture Data", "topics": [ "bootstrapSoilTexture" ] }, { "page": "brierScore", "title": "Multinominal Brier Score", "topics": [ "brierScore" ] }, { "page": "buntley.westin.index", "title": "Buntley-Westin (1965) Index", "topics": [ "buntley.westin.index" ] }, { "page": "combine-SoilProfileCollection-method", "title": "Combine SoilProfileCollection objects", "topics": [ "c", "c,SoilProfileCollection-method", "combine", "combine,list-method", "combine,SoilProfileCollection-method" ] }, { "page": "ca630", "title": "Soil Data from the Central Sierra Nevada Region of California", "topics": [ "ca630" ] }, { "page": "checkHzDepthLogic", "title": "Check a SoilProfileCollection object for errors in horizon depths.", "topics": [ "checkHzDepthLogic" ] }, { "page": "checkSPC", "title": "Test for a valid 'SoilProfileCollection'", "topics": [ "checkSPC" ] }, { "page": "col2Munsell", "title": "Convert colors into Munsell Notation", "topics": [ "col2Munsell" ] }, { "page": "collapseHz", "title": "Collapse Horizons within Profiles Based on Pattern Matching", "topics": [ "collapseHz" ] }, { "page": "colorChart", "title": "Visualize soil colors in Munsell notation according to within-group frequency.", "topics": [ "colorChart" ] }, { "page": "colorContrast", "title": "Metrics of Contrast Suitable for Comparing Soil Colors", "topics": [ "colorContrast" ] }, { "page": "colorContrastPlot", "title": "Color Contrast Plot", "topics": [ "colorContrastPlot" ] }, { "page": "colorQuantiles", "title": "Soil Color Range via Quantiles", "topics": [ "colorQuantiles" ] }, { "page": "colorVariation", "title": "Quantitative Description of Color Variation", "topics": [ "colorVariation" ] }, { "page": "compareSites", "title": "Compare Site Level Attributes of a SoilProfileCollection", "topics": [ "compareSites" ] }, { "page": "compositeSPC", "title": "Return a list representation of site and horizon level data", "topics": [ "compositeSPC", "compositeSPC,SoilProfileCollection-method" ] }, { "page": "confusionIndex", "title": "Confusion Index", "topics": [ "confusionIndex" ] }, { "page": "contrastChart", "title": "Color Contrast Chart", "topics": [ "contrastChart" ] }, { "page": "contrastClass", "title": "Soil Color Contrast", "topics": [ "contrastClass" ] }, { "page": "correctAWC", "title": "Apply rock fragment or salt correction to available water content", "topics": [ "correctAWC" ] }, { "page": "crit.clay.argillic", "title": "Determines threshold (minimum) clay content for argillic upper bound", "topics": [ "crit.clay.argillic" ] }, { "page": "denormalize", "title": "Create a (redundant) horizon-level attribute from a site-level attribute", "topics": [ "denormalize" ] }, { "page": "depth_units", "title": "Get depth units from metadata", "topics": [ "depth_units", "depth_units,SoilProfileCollection-method", "depth_units<-", "depth_units<-,SoilProfileCollection-method" ] }, { "page": "depthOf", "title": "Get top or bottom depths of horizons matching a regular expression pattern", "topics": [ "depthOf", "maxDepthOf", "minDepthOf" ] }, { "page": "depths", "title": "Initialize a SoilProfileCollection from data.frame", "topics": [ "depths", "depths,SoilProfileCollection-method", "depths<-", "depths<-,data.frame-method", "depths<-,SoilProfileCollection-method" ] }, { "page": "depthWeights", "title": "Return a vector of contributing fractions over a depth interval", "topics": [ "depthWeights", "depthWeights,SoilProfileCollection-method" ] }, { "page": "diagnostic_hz", "title": "Get or Set Diagnostic Horizon data in a SoilProfileCollection", "topics": [ "diagnostic_hz", "diagnostic_hz,SoilProfileCollection-method", "diagnostic_hz<-", "diagnostic_hz<-,SoilProfileCollection-method" ] }, { "page": "dice-SoilProfileCollection-method", "title": "Efficient Slicing of 'SoilProfileCollection' Objects", "topics": [ "dice", "dice,SoilProfileCollection-method" ] }, { "page": "duplicate", "title": "Duplicate Profiles of a SoilProfileCollection", "topics": [ "duplicate" ] }, { "page": "electroStatics_1D", "title": "Label placement based on a simulation of electrostatic forces", "topics": [ "electroStatics_1D" ] }, { "page": "equivalent_munsell", "title": "Indices of \"equivalent\" Munsell chips in the 'munsell' data set", "topics": [ "equivalent_munsell" ] }, { "page": "equivalentMunsellChips", "title": "Identify \"equivalent\" (whole number value/chroma) Munsell chips", "topics": [ "equivalentMunsellChips" ] }, { "page": "estimateAWC", "title": "Estimate available water capacity for fine-earth fraction", "topics": [ "estimateAWC" ] }, { "page": "estimatePSCS", "title": "Estimate boundaries of the U.S Soil Taxonomy Particle Size Control Section", "topics": [ "estimatePSCS" ] }, { "page": "estimateSoilColor", "title": "Estimate dry soil colors from moist soil colors and vice versa.", "topics": [ "estimateSoilColor" ] }, { "page": "estimateSoilDepth", "title": "Estimate Soil Depth", "topics": [ "estimateSoilDepth" ] }, { "page": "evalGenHZ", "title": "Evaluate Generalized Horizon Labels", "topics": [ "evalGenHZ" ] }, { "page": "evalMissingData", "title": "Evaluate Missing Data within a SoilProfileCollection", "topics": [ "evalMissingData" ] }, { "page": "explainPlotSPC", "title": "Visual Explanation for 'plotSPC'", "topics": [ "explainPlotSPC" ] }, { "page": "fillHzGaps", "title": "Find and Fill Horizon Gaps", "topics": [ "fillHzGaps" ] }, { "page": "overlapMetrics", "title": "Find Overlap within a Sequence", "topics": [ "findOverlap", "overlapMetrics" ] }, { "page": "fixOverlap", "title": "Fix Overlap within a Sequence", "topics": [ "fixOverlap" ] }, { "page": "flagOverlappingHz", "title": "Flag perfectly overlapping horizons within a SoilProfileCollection", "topics": [ "flagOverlappingHz" ] }, { "page": "formatMunsell", "title": "Format Munsell Notation from Hue, Value, and Chroma", "topics": [ "formatMunsell" ] }, { "page": "fragmentClasses", "title": "Coarse Fragment Class Labels and Diameter", "topics": [ "fragmentClasses" ] }, { "page": "fragmentSieve", "title": "Sieve the Coarse Fraction of Soil", "topics": [ "fragmentSieve" ] }, { "page": "generalize.hz", "title": "Generalize Horizon Names", "topics": [ "generalize.hz", "generalizeHz", "generalizeHz,character-method", "generalizeHz,SoilProfileCollection-method" ] }, { "page": "genhzTableToAdjMat", "title": "Convert cross-tabulation to adjacency matrix.", "topics": [ "genhzTableToAdjMat" ] }, { "page": "genSlabLabels", "title": "Generate Labels for Slabs", "topics": [ "genSlabLabels" ] }, { "page": "get.increase.matrix", "title": "Compute Pair-wise Distances of Soil Properties over Depth", "topics": [ "get.increase.depths", "get.increase.matrix" ] }, { "page": "get.ml.hz", "title": "Determine ML Horizon Boundaries", "topics": [ "get.ml.hz" ] }, { "page": "getArgillicBounds", "title": "Estimate upper and lower boundary of argillic diagnostic subsurface horizon", "topics": [ "getArgillicBounds" ] }, { "page": "getCambicBounds", "title": "Find all intervals that are potentially part of a Cambic horizon", "topics": [ "getCambicBounds" ] }, { "page": "getClosestMunsellChip", "title": "Get Approximate Munsell Chip", "topics": [ "getClosestMunsellChip" ] }, { "page": "getLastHorizonID", "title": "Get IDs of Deepest Horizons by Profile", "topics": [ "getLastHorizonID" ] }, { "page": "getSoilDepthClass", "title": "Generate Soil Depth Class Matrix", "topics": [ "getSoilDepthClass" ] }, { "page": "getSurfaceHorizonDepth", "title": "Determine thickness of horizons (continuous from surface) matching a pattern", "topics": [ "getMineralSoilSurfaceDepth", "getPlowLayerDepth", "getSurfaceHorizonDepth" ] }, { "page": "GHL", "title": "Get or Set Generalized Horizon Label (GHL) Column Name", "topics": [ "GHL", "GHL,SoilProfileCollection-method", "GHL<-", "GHL<-,SoilProfileCollection-method" ] }, { "page": "glom", "title": "Subset soil horizon data using a depth or depth interval", "topics": [ "glom", "glom,SoilProfileCollection-method", "trunc,SoilProfileCollection-method" ] }, { "page": "glomApply", "title": "Subset an SPC by applying glom to each profile", "topics": [ "glomApply", "glomApply,SoilProfileCollection-method" ] }, { "page": "grepSPC", "title": "Subset SPC with pattern-matching for text-based attributes", "topics": [ "grepSPC", "grepSPC,SoilProfileCollection-method" ] }, { "page": "groupedProfilePlot", "title": "Grouped Soil Profile Plot", "topics": [ "groupedProfilePlot" ] }, { "page": "groupSPC", "title": "Store groupings within a profile collection.", "topics": [ "groupSPC" ] }, { "page": "guessGenHzLevels", "title": "Guess Appropriate Ordering for Generalized Horizon Labels", "topics": [ "guessGenHzLevels" ] }, { "page": "guessHzAttrName", "title": "Guess Horizon Slot Column Names", "topics": [ "guessHzAttrName", "guessHzDesgnName", "guessHzTexClName" ] }, { "page": "harden.melanization", "title": "Harden (1982) Melanization", "topics": [ "harden.melanization" ] }, { "page": "harden.rubification", "title": "Harden (1982) Rubification", "topics": [ "harden.rubification" ] }, { "page": "harmonize-SoilProfileCollection-method", "title": "Harmonize a property by profile-level denormalization for convenient visualization or analysis of ranges", "topics": [ "harmonize", "harmonize,SoilProfileCollection-method" ] }, { "page": "hasDarkColors", "title": "Find horizons with colors darker than a Munsell hue, value, chroma threshold", "topics": [ "hasDarkColors" ] }, { "page": "horizonColorIndices", "title": "Horizon Color Indices", "topics": [ "horizonColorIndices" ] }, { "page": "horizonDepths", "title": "Set horizon depth column names", "topics": [ "horizonDepths", "horizonDepths,SoilProfileCollection-method", "horizonDepths<-", "horizonDepths<-,SoilProfileCollection-method" ] }, { "page": "horizonNames", "title": "Set horizon column names", "topics": [ "horizonNames", "horizonNames,SoilProfileCollection-method", "horizonNames<-", "horizonNames<-,SoilProfileCollection-method" ] }, { "page": "horizons", "title": "Retrieve horizon data from SoilProfileCollection", "topics": [ "horizons", "horizons,SoilProfileCollection-method", "horizons<-", "horizons<-,SoilProfileCollection-method" ] }, { "page": "huePosition", "title": "Munsell Hue Reference and Position Searching", "topics": [ "huePosition" ] }, { "page": "huePositionCircle", "title": "Visual Description of Munsell Hue Ordering", "topics": [ "huePositionCircle" ] }, { "page": "hurst.redness", "title": "Hurst (1977) Redness Index", "topics": [ "hurst.redness" ] }, { "page": "hz_dissolve", "title": "Dissolving horizon boundaries by grouping variables", "topics": [ "dissolve_hz", "hz_dissolve" ] }, { "page": "hz_intersect", "title": "Intersecting horizon boundaries by horizon depths", "topics": [ "hz_intersect" ] }, { "page": "hz_lag", "title": "Find lagged horizon values", "topics": [ "hz_lag" ] }, { "page": "hz_segment", "title": "Segmenting of Soil Horizon Data by Depth Interval", "topics": [ "hz_segment", "segment" ] }, { "page": "hz_to_taxpartsize", "title": "Allocate Particle Size Class for the Control Section.", "topics": [ "hz_to_taxpartsize" ] }, { "page": "hzOffset", "title": "Select Horizons Above or Below a Reference Horizon", "topics": [ "hzAbove", "hzBelow", "hzOffset" ] }, { "page": "HzDepthLogicSubset", "title": "Subset 'SoilProfileCollection' Objects or Horizons via 'checkHzDepthLogic'", "topics": [ "HzDepthLogicSubset" ] }, { "page": "hzDepthTests", "title": "Tests of horizon depth logic", "topics": [ "hzDepthTests" ] }, { "page": "hzDesgn", "title": "Get horizon designation column name", "topics": [ "hzDesgn", "hzDesgn,SoilProfileCollection-method" ] }, { "page": "hzdesgnname", "title": "Get or Set Horizon Designation Column Name", "topics": [ "hzdesgnname", "hzdesgnname,SoilProfileCollection-method", "hzdesgnname<-", "hzdesgnname<-,SoilProfileCollection-method" ] }, { "page": "hzDistinctnessCodeToOffset", "title": "Convert Horizon Boundary Distinctness to Vertical Offset", "topics": [ "hzDistinctnessCodeToOffset" ] }, { "page": "hzID", "title": "Set horizon IDs", "topics": [ "hzID", "hzID,SoilProfileCollection-method", "hzID<-", "hzID<-,SoilProfileCollection-method" ] }, { "page": "hzidname", "title": "Set horizon ID column name", "topics": [ "hzidname", "hzidname,SoilProfileCollection-method", "hzidname<-", "hzidname<-,SoilProfileCollection-method" ] }, { "page": "hzMetadata", "title": "Get horizon-level metadata", "topics": [ "hzMetadata", "hzMetadata,SoilProfileCollection-method" ] }, { "page": "hzmetaname", "title": "Get or Set Horizon Metadata Column Name", "topics": [ "hzmetaname", "hzmetaname,SoilProfileCollection-method", "hzmetaname<-", "hzmetaname<-,SoilProfileCollection-method" ] }, { "page": "hztexclname", "title": "Get or Set Horizon Texture Class Column Name", "topics": [ "hztexclname", "hztexclname,SoilProfileCollection-method", "hztexclname<-", "hztexclname<-,SoilProfileCollection-method" ] }, { "page": "hzTopographyCodeToLineType", "title": "Convert Horizon Boundary Topography to Line Type", "topics": [ "hzTopographyCodeToLineType" ] }, { "page": "hzTopographyCodeToOffset", "title": "Convert Horizon Boundary Topography to Vertical Offset", "topics": [ "hzTopographyCodeToOffset" ] }, { "page": "hzTransitionProbabilities", "title": "Horizon Transition Probabilities", "topics": [ "hzTransitionProbabilities", "mostLikelyHzSequence" ] }, { "page": "idname", "title": "Get profile ID column name", "topics": [ "idname", "idname,SoilProfileCollection-method" ] }, { "page": "initSpatial", "title": "Initialize Spatial Data in a SoilProfileCollection", "topics": [ "coordinates", "coordinates,SoilProfileCollection-method", "coordinates<-", "coordinates<-,SoilProfileCollection,ANY-method", "coordinates<-,SoilProfileCollection,character-method", "getSpatial", "getSpatial,SoilProfileCollection-method", "initSpatial<-", "initSpatial<-,SoilProfileCollection,ANY,ANY-method", "initSpatial<-,SoilProfileCollection,ANY,character-method" ] }, { "page": "invertLabelColor", "title": "Make High Contrast Label Colors", "topics": [ "invertLabelColor" ] }, { "page": "isEmpty", "title": "Check for \"empty\" profiles in a SoilProfileCollection", "topics": [ "isEmpty", "isEmpty,SoilProfileCollection-method" ] }, { "page": "jacobs2000", "title": "Soil Morphologic Data from Jacobs et al. 2002.", "topics": [ "jacobs2000" ] }, { "page": "L1_profiles", "title": "Create Representative Soil Profiles via L1 Estimator", "topics": [ "L1_profiles" ] }, { "page": "launderMunsell", "title": "Fix Common Errors in Munsell Notation", "topics": [ "launderMunsell" ] }, { "page": "length", "title": "Get the number of profiles in a SoilProfileCollection", "topics": [ "length", "length,SoilProfileCollection-method" ] }, { "page": "lookup_taxpartsize", "title": "Ranking Systems for USDA Taxonomic Particle-Size and Substitute Classes of Mineral Soils", "topics": [ "lookup_taxpartsize" ] }, { "page": "lunique", "title": "Eliminate duplicate instances of profile IDs in a list of SoilProfileCollections", "topics": [ "lunique" ] }, { "page": "max", "title": "Get the maximum bottom depth in a SoilProfileCollection", "topics": [ "max", "max,SoilProfileCollection-method" ] }, { "page": "metadata", "title": "Retrieve metadata from SoilProfileCollection", "topics": [ "metadata", "metadata,SoilProfileCollection-method", "metadata<-", "metadata<-,SoilProfileCollection-method" ] }, { "page": "min", "title": "Get the minimum bottom depth in a SoilProfileCollection", "topics": [ "min", "min,SoilProfileCollection-method" ] }, { "page": "missingDataGrid", "title": "Missing Data Grid", "topics": [ "missingDataGrid" ] }, { "page": "mixMunsell", "title": "Mix Munsell Colors via Spectral Library", "topics": [ "mixMunsell" ] }, { "page": "mollic.thickness.requirement", "title": "Calculate the minimum thickness requirement for Mollic epipedon", "topics": [ "mollic.thickness.requirement" ] }, { "page": "mu_confusion_matrix", "title": "Map unit confusion matrix and other classification measures", "topics": [ "mu_confusion_matrix" ] }, { "page": "munsell", "title": "Munsell to sRGB Lookup Table for Common Soil Colors", "topics": [ "munsell" ] }, { "page": "munsell.spectra", "title": "Spectral Library of Munsell Colors", "topics": [ "munsell.spectra", "munsell.spectra.wide" ] }, { "page": "munsell2rgb", "title": "Convert Munsell Color Notation to other Color Space Coordinates (sRGB and CIELAB)", "topics": [ "munsell2rgb" ] }, { "page": "munsell2spc-SoilProfileCollection-method", "title": "Merge Munsell Hue, Value, Chroma converted to sRGB & CIELAB into a SoilProfileCollection", "topics": [ "munsell2spc", "munsell2spc,SoilProfileCollection-method" ] }, { "page": "munsellHuePosition", "title": "Munsell Hue Position Reference", "topics": [ "munsellHuePosition" ] }, { "page": "mutate_profile", "title": "Transform a SPC (by profile) with a set of expressions", "topics": [ "mutate_profile", "mutate_profile,SoilProfileCollection-method", "mutate_profile_raw" ] }, { "page": "names", "title": "Get names of columns in site and horizons table", "topics": [ ".DollarNames.SoilProfileCollection", "names", "names,SoilProfileCollection-method" ] }, { "page": "NCSP", "title": "Numerical Classification of Soil Profiles", "topics": [ "NCSP" ] }, { "page": "nrow", "title": "Get the number of horizons in a SoilProfileCollection", "topics": [ "nrow", "nrow,SoilProfileCollection-method" ] }, { "page": "Ohz.colors", "title": "Representative O Horizon Colors", "topics": [ "Ohz.colors" ] }, { "page": "osd", "title": "Example Output from soilDB::fetchOSD()", "topics": [ "osd" ] }, { "page": 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"plotMultipleSPC", "title": "Plot Multiple 'SoilProfileCollection' Objects", "topics": [ "plotMultipleSPC" ] }, { "page": "plotProfileDendrogram", "title": "Plot soil profiles below a dendrogram or cladogram", "topics": [ "plotProfileDendrogram" ] }, { "page": "SoilProfileCollection-plotting-methods", "title": "Create Soil Profile Sketches", "topics": [ "plot", "plot,SoilProfileCollection,ANY-method", "plot,SoilProfileCollection,ANY-method,plot.SoilProfileCollection", "plot,SoilProfileCollection-method", "plotSPC" ] }, { "page": "previewColors", "title": "Preview Colors", "topics": [ "previewColors" ] }, { "page": "SoilProfileCollection-crs", "title": "Get or Set Coordinate Reference System for SoilProfileCollection", "topics": [ "prj", "prj,SoilProfileCollection-method", "prj<-", "prj<-,SoilProfileCollection-method", "proj4string", "proj4string,SoilProfileCollection-method", "proj4string<-", "proj4string<-,SoilProfileCollection-method" ] }, { "page": "profile_id", "title": "Set 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