The GSC Applied Geochemistry EDA Package


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Documentation for package ‘rgr’ version 1.1.1

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A B C D F G I K L M O R S T V W X

-- --

rgr-package The GSC (Geological Survey of Canada) Applied Geochemistry EDA Package

-- A --

alr Arithmetic Log-Ratio (alr) transformation
anova1 Analysis of Variance (ANOVA)
anova2 Analysis of Variance (ANOVA), Alternate Input

-- B --

bwplots Plot Vertical Box-and-Whisker Plots
bwplots.by.var Plot Vertical Box-and-Whisker Plots for Variables
bxplot Plot a Horizontal Boxplot or Box-and-Whisker Plot

-- C --

caplot Prepare a Concentration-Area (C-A) Plot
cat2list Divides Data into Subsets by Factor
clr Centred Log-Ratio (clr) transformation
cnpplt Cumulative Normal Percentage Probability (CPP) Plot
cutter Function to Identify in Which Interval a Value Falls

-- D --

df.test Check for the existence of a Dataframe
display.ascii.o Display the Windows Latin 1 Font Octal Table
display.lty Display Available Line Styles and Colour Codes
display.marks Display Available Plotting Marks
display.rainbow Display the Colours of the Rainbow(36) Pallette

-- F --

fences Generate and Display Fence Values
fences.summary Generate and Save Fence Values for Data Subsets
fix.test Test Data for Function ltdl.fix.df
framework.stats Compile Framework/Subset Summary Statistics
framework.summary Generate and Save Framework/Subset Summary Statistics

-- G --

gx.2dproj Function to Compute and Display 2-d Projections for Data Matrices
gx.2dproj.plot Function to Display a Saved 2-D Projection Object
gx.add.chisq Function to Add Fences to Chi-square Plots
gx.adjr2 Function to compute Adjusted r-squared values
gx.cnpplts Multiple (max 9) Cumulative Normal Probability (CPP) plots
gx.cnpplts.setup Set Up and Display Symbolgy for function \code{gx.cnpplts}
gx.ecdf Emprical Cumulative Distribution Function (ECDF)
gx.fractile Estimate the Fractile for a Specified Quantile
gx.hist Plot a Histogram
gx.hypergeom Compute Probabilities for Target Recognition
gx.ks.test Kolmogorov-Smirnov test with ECDF Plot
gx.lm.vif Estimate Variance Inflation Factosr (VIFs).
gx.md.display Function to Display Membership Probabilities and Other Relevant Data
gx.md.gait Function for Multivariate Graphical Adaptive Interactive Trimming
gx.md.gait.closed Function for Multivariate Graphical Adaptive Interactive Trimming with Compositional Data
gx.md.plot Function to Display Chi-square Plots of Mahalanobis Distances
gx.md.plt0 Function to Display Chi-square plots of Mahalanobis Distances
gx.md.print Function to Display Membership Probabilities
gx.mva Function to undertake an Exploratory Multivariate Data Analysis
gx.mvalloc Function for Allocation on the basis of Multivariate Data
gx.mvalloc.closed Function for Allocation on the basis of Multivariate Data for closed Compositional Data
gx.mvalloc.print Function to display the results of Multivariate Allocation
gx.pearson Display Pearson Correlation Coefficients and their Significances
gx.quantile Estimate the Quantile for a Specified Fractile
gx.rma Estimate the Coefficients of the Reduced Major Axis
gx.robmva Function to undertake a Robust Exploratory Multivariate Data Analysis
gx.robmva.closed Function to undertake a Robust Closed Data Multivariate EDA
gx.rotate Function to Perform a Kaiser Varimax Rotaion
gx.rqpca.loadplot Function to Graphically Display PCA Loadings
gx.rqpca.plot Function to Plot Principal Component Analysis Loadings and Scores
gx.rqpca.print Function to Display PCA Loadings and Scores
gx.rqpca.screeplot Display a Scree Plot
gx.runs The Wald-Wolfowitz, \sQuote{Runs}, Test
gx.sort Function to Single Column Sort a Matrix or Dataframe
gx.sort.df Function to Multi-Column Sort a Dataframe
gx.spearman Display Spearman Correlation Coefficients and their Significances
gx.stats Function to Compute and Display Summary Statistics
gx.subset Extracts a Subset of Rows from a Dataframe
gx.summary Compiles a Table of Summary Statistics
gx.summary.groups Displays Summary Statistics for a Variable Grouped by a Factor
gx.summary.mat Displays Summary Statistics for a Matrix or Dataframe
gx.summary1 Display a one-line Summary Statistics Report
gx.summary2 Display a ten-line Summary Statistics Report
gx.triples.aov Carries out a 3-Level Staggered ANOVA and Estimates Variance Components
gx.triples.fgx ANOVA to Estimate if \sQuote{Triples} are a Valid Subset

-- I --

ilr Isometric Log-Ratio (ilr) transformation
inset An EDA Graphical and Statistical Summary
inset.exporter Saves an EDA Graphical and Statistical Summary

-- K --

kola.c Kola Project C-horizon Soil Data
kola.o Kola Project O-horizon Soil Data

-- L --

ltdl.fix Replace Negative Values Representing Less Than Detects in a Vector
ltdl.fix.df Replace Negative Values Representing Less Than Detects in a Dataframe

-- M --

map.eda7 Plot a Symbol Map of Data Based on the Tukey Boxplot
map.eda8 Plot a Symbol Map of Data Based on their Percentiles
map.tags Plot a Map of Posted Values
map.z Plot a Map of Data using Proportional Symbols
ms.data1 Measurement Variability Test Data
ms.data2 Measurement Variability Test Data
ms.data3 Measurement Variability Test Data

-- O --

ogrady Lithogeochemical Data Set from the O'Grady Pluton, NWT, 1970
orthonorm Computation of an Orthonormal Basis Matrix

-- R --

remove.na Remove and Count NAs
rgr The GSC (Geological Survey of Canada) Applied Geochemistry EDA Package
rng Undertakes a range transformation on the columns of a matrix

-- S --

shape An EDA Graphical Summary
sind Sinding-Larsen Norwegian Stream Sediment Test Data Set
syms Function to Compute the Diameters of Proportional Symbols
syms.pfunc Function to Demonstrate the Effect of Different Values of p

-- T --

tbplots Plot Vertical Tukey Boxplots
tbplots.by.var Plot Vertical Tukey Boxplots for Variables
thplot1 Display a Thompson-Howarth Plot of Duplicate Measurements
thplot2 Display a Thompson-Howarth Plot of Duplicate Measurements, Alternate Input
triples.test1 North American Geochemical Soil Landscapes Project QA/QC data
triples.test2 North American Geochemical Soil Landscapes Project QA/QC data

-- V --

var2fact Rearranges Data for Variables as Factors

-- W --

where.na Identify Vector Elements or Dataframe/Matrix Rows with NAs
wtd.sums Function to Compute Weighted Sums

-- X --

xyplot.eda7 Display a Third Variable in a X-Y Plot using Tukey Boxplot Symbology
xyplot.eda8 Display a Third Variable in a X-Y Plot as Percentiles
xyplot.tags Display a Plot of Posted Values for a Third Variable
xyplot.z Display a Third Variable in a X-Y Plot using Proportional Symbols