prj,SoilProfileCollection-method
Get or Set Coordinate Reference System for SoilProfileCollection
An S4 object representation of a group of soil profiles.
Average Hydraulic Parameters from the ROSETTA Model by USDA Soil Texture
Class
Subset SoilProfileCollection
Objects or Horizons via checkHzDepthLogic
Fix Overlap within a Sequence via Simulated Annealing
Get or Set Generalized Horizon Label (GHL) Column Name
Create Representative Soil Profiles via L1 Estimator
Example SoilProfileCollection with Overlapping Horizons
Create Soil Profile Sketches
Numerical Classification of Soil Profiles
Probabilistic Estimation of Soil Depth within Groups
Ranking Systems for USDA Soil Texture Classes
Allocate soil properties within various classification systems.
Algorithms for Quantitative Pedology
Multinominal Brier Score
barron.torrent.redness.LAB
Barron & Torrent (1986) Redness Index in LAB color space
Calculate Relative Positions from Transect Data
Buntley-Westin (1965) Index
aqp_df_class,SoilProfileCollection-method
Get aqp_df_class entry from metadata or return a safe value.
argillic.clay.increase.depth
Return upper boundary of argillic horizon
Coerce SoilProfileCollection with as()
Accumulate horizon depths, and reflect reversed depths, relative to new datum
Test for a valid SoilProfileCollection
Bootstrap Soil Texture Data
Return a list representation of site and horizon level data
Compare Site Level Attributes of a SoilProfileCollection
Soil Color Range via Quantiles
c,SoilProfileCollection-method
Combine SoilProfileCollection objects
Confusion Index
Color Contrast Chart
Visualize soil colors in Munsell notation according to within-group frequency.
Convert colors into Munsell Notation
Add Data to Diagnostic Features Slot
diagnostic_hz,SoilProfileCollection-method
Retrieve diagnostic data from SoilProfileCollection
Soil Color Contrast
Apply rock fragment or salt correction to available water content
Create a (redundant) horizon-level attribute from a site-level attribute
Determines threshold (minimum) clay content for argillic upper bound
Check a SoilProfileCollection object for errors in horizon depths.
Summarize Soil Colors
Symbolize Volume Fraction on a Soil Profile Collection Plot
Get top or bottom depths of horizons matching a regular expression pattern
Return a vector of contributing fractions over a depth interval
Soil Data from the Central Sierra Nevada Region of California
Label placement based on a simulation of electrostatic forces
Duplicate Profiles of a SoilProfileCollection
Add Depth Brackets
depth_units,SoilProfileCollection-method
Get depth units from metadata
Annotate Diagnostic Features
Color Contrast Plot
Metrics of Contrast Suitable for Comparing Soil Colors
Get column of horizon or site data in a SoilProfileCollection
Add or change column of horizon or site data in a SoilProfileCollection
Identify "equivalent" (whole number value/chroma) Munsell chips
Indices of "equivalent" Munsell chips in the munsell
data set
Dissolving horizon boundaries by grouping variables
dice,SoilProfileCollection-method
Efficient Slicing of SoilProfileCollection
Objects
Initialize a SoilProfileCollection from data.frame
Estimate available water capacity for fine-earth fraction
Evaluate Generalized Horizon Labels
Set data in column of horizon or site data in a SoilProfileCollection
Get data from column of horizon or site data in a SoilProfileCollection
Estimate boundaries of the particle size control section (U.S Soil Taxonomy;
12th edition)
Estimate dry soil colors from moist soil colors and vice versa.
Fix Overlap within a Sequence
Flag perfectly overlapping horizons within a SoilProfileCollection
Find and Fill Horizon Gaps
Visual Explanation for plotSPC
Estimate upper and lower boundary of argillic diagnostic subsurface horizon
Find all intervals that are potentially part of a Cambic horizon
Get Approximate Munsell Chip
Estimate Soil Depth
Determine ML Horizon Boundaries
Convert cross-tabulation to adjacency matrix.
Coarse Fragment Class Labels and Diameter
Sieve the Coarse Fraction of Soil
Compute Pair-wise Distances of Soil Properties over Depth
Evaluate Missing Data within a SoilProfileCollection
Subset an SPC by applying glom to each profile
Determine thickness of horizons (continuous from surface) matching a pattern
Guess Appropriate Ordering for Generalized Horizon Labels
Generalize Horizon Names
Generate Labels for Slabs
Get IDs of Deepest Horizons by Profile
glom,SoilProfileCollection-method
Subset soil horizon data using a depth or depth interval
Guess Horizon Slot Column Names
Store groupings within a profile collection.
Generate Soil Depth Class Matrix
Grouped Soil Profile Plot
Subset SPC with pattern-matching for text-based attributes
Harden (1982) Rubification
Harden (1982) Melanization
harmonize,SoilProfileCollection-method
Harmonize a property by profile-level denormalization for convenient visualization or analysis of ranges
Munsell Hue Reference and Position Searching
Set horizon column names
Horizon Color Indices
horizons,SoilProfileCollection-method
Retrieve horizon data from SoilProfileCollection
Visual Description of Munsell Hue Ordering
hzTopographyCodeToLineType
Convert Horizon Boundary Topography to Line Type
hzMetadata,SoilProfileCollection-method
Get horizon-level metadata
Tests of horizon depth logic
Hurst (1977) Redness Index
hzID<-,SoilProfileCollection-method
Set horizon IDs
Horizons Above or Below
hzDesgn,SoilProfileCollection-method
Get horizon designation column name
Set horizon depth column names
hzDistinctnessCodeToOffset
Convert Horizon Boundary Distinctness to Vertical Offset
Find horizons with colors darker than a Munsell hue, value, chroma threshold
hzTransitionProbabilities
Horizon Transition Probabilities
Get or Set Horizon Texture Class Column Name
length,SoilProfileCollection-method
Get the number of profiles in a SoilProfileCollection
Convert Horizon Boundary Topography to Vertical Offset
Eliminate duplicate instances of profile IDs in a list of SoilProfileCollections
idname,SoilProfileCollection-method
Get profile ID column name
Get or Set Horizon Designation Column Name
Soil Morphologic Data from Jacobs et al. 2002.
isEmpty,SoilProfileCollection-method
Check for "empty" profiles in a SoilProfileCollection
max,SoilProfileCollection-method
Get the maximum bottom depth in a SoilProfileCollection
metadata,SoilProfileCollection-method
Retrieve metadata from SoilProfileCollection
Mix Munsell Colors via Spectral Library
mollic.thickness.requirement
Calculate the minimum thickness requirement for Mollic epipedon
Munsell to sRGB Lookup Table for Common Soil Colors
Spectral Library of Munsell Colors
names,SoilProfileCollection-method
Get names of columns in site and horizons table
Lattice Panel Function for Soil Profiles
Parse Munsell Color Notation
Set horizon ID column name
nrow,SoilProfileCollection-method
Get the number of horizons in a SoilProfileCollection
Munsell Hue Position Reference
Convert Munsell Color Notation to other Color Space Coordinates (sRGB and CIELAB)
munsell2spc,SoilProfileCollection-method
Merge Munsell Hue, Value, Chroma converted to sRGB & CIELAB into a SoilProfileCollection
Transform a SPC (by profile) with a set of expressions
Perturb soil horizon depths using boundary distinctness
Combine a list of SoilProfileCollection objects
Find Overlap within a Sequence
Example Output from soilDB::fetchOSD()
Soil Profile Information Index
Soil Profile Group Labels
Iterate over profiles in a SoilProfileCollection
Preview Colors
Missing Data Grid
Make High Contrast Label Colors
Initialize Spatial Data in a SoilProfileCollection
Convert pH to/from Reaction Classes
min,SoilProfileCollection-method
Get the minimum bottom depth in a SoilProfileCollection
Visualize Color Quantiles
Plot Multiple SoilProfileCollection
Objects
Re-order corrupted horizon data
Replace Data in Horizon Slot
Visualize Spectral Mixing of Munsell Colors
Quickly Assemble a SoilProfileCollection
Between Individual Distance Plot
Repair Problematic Lower Horizon Depths
Random Profile
Set profile IDs
Deprecated: Numerical Soil Profile Comparison
Add Data to Restrictions Slot
Soil Morphologic, Geochemical, and Mineralogy Data from Rowley et al. 2019.
Segmenting of Soil Horizon Data by Depth Interval
Soil Physical and Chemical Data Related to Studies in the Sierra Nevada
Mountains, CA, USA.
DEPRECATED Simulate Soil Profiles
pH Reaction Classes
Shannon Entropy
SoilProfileCollection show method
restrictions,SoilProfileCollection-method
Retrieve restriction data from SoilProfileCollection
sRGB to Munsell Color Conversion
Rebuild a SoilProfileCollection object
Select a subset of columns from a SoilProfileCollection
Slab-Wise Aggregation of SoilProfileCollection Objects
Set site column names
site,SoilProfileCollection-method
Retrieve site data from SoilProfileCollection
[,SoilProfileCollection-method
Matrix/data.frame-like access to profiles and horizons in a SoilProfileCollection
Simulate Soil Colors
Tukey's HSD Over Slices
Lookup tables for sand, silt, clay, texture class, and textural modifiers.
Soil Color Palette
Munsell Colors of Common Soil Minerals
Soil Profile Color Signatures
Slicing of SoilProfileCollection Objects
Soil Profile Data Example 1
Soil Chemical Data from Serpentinitic Soils of California
Standard Illuminants and Observers
Honcut Creek Soil Profile Data
split,SoilProfileCollection-method
Split a SoilProfileCollection object into a list of SoilProfileCollection objects.
Sample Soil Database #5
spc2mpspline,SoilProfileCollection-method
SoilProfileCollection wrapper for mpspline2::mpspline()
Soil Physical and Chemical Data from Manganiferous Soils
Soil Profile Data Example 3
subset,SoilProfileCollection-method
Subset a SoilProfileCollection with logical expressions
Perform summaries on groups (from group_by
) and create new site or horizon level attributes
DEPRECATED use subset
Split a SoilProfileCollection
into a list based on types of horizon logic errors
Soil Texture Low-RV-High as Defined by Quantiles
subsetHz,SoilProfileCollection-method
Subset the horizons in a SoilProfileCollection using logical criteria
Convert reflectance spectra to closest Munsell chip
Subset SPC based on result of performing function on each profile
Quickly assess relative state of site and horizon slots
Calculate Thickness of Horizons Matching Logical Criteria
Thompson-Bell (1996) Index
Format a LaTeX table with results
transform,SoilProfileCollection-method
Transform a SPC with expressions based on site or horizon level attributes
Textural conversions
US State Soils
validSpatialData,SoilProfileCollection-method
Check for valid spatial reference of profiles
Traditional Soil Color Names
unique,SoilProfileCollection-method
Uniqueness within a SoilProfileCollection
via MD5 Hash
Inflate / Deflate Horizon Thickness
Example Data from Wilson et al. 2022
Unroll Genetic Horizons
Compute weighted naive and tau statistics for a cross-classification matrix