Sourcing Archaeological Materials by Chemical Composition

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Documentation for package ‘nexus’ version 0.2.0

• DESCRIPTION file.
• User guides, package vignettes and other documentation.
• Package NEWS.

Help Pages

A B C D G H I M O P Q R S T V misc

-- A --

aggregate	Compute Summary Statistics of Data Subsets
aggregate-method	Compute Summary Statistics of Data Subsets
any_assigned	Working With Groups
any_assigned-method	Working With Groups
any_replicated	Working With Samples
any_replicated-method	Working With Samples
arctic	Arctic Lake
arithmetic	Operations in the Simplex
as_amounts	Coerce to Amounts
as_amounts-method	Coerce to Amounts
as_composition	Coerce to a Closed Compositional Matrix
as_composition-method	Coerce to a Closed Compositional Matrix
as_features	Coerce to Features
as_features-method	Coerce to Features
as_graph	Graph of Log-ratios
as_graph-method	Graph of Log-ratios

-- B --

barplot	Barplot of Compositional Data
barplot-method	Barplot of Compositional Data

-- C --

chemistry	Can Sora Chemical Data
closure	Closure Operation
closure-method	Closure Operation
covariance	Covariance Matrix
covariance-method	Covariance Matrix

-- D --

dist	Distances
dist-method	Distances

-- G --

get_groups	Working With Groups
get_groups-method	Working With Groups
get_identifiers	Unique Identifiers
get_identifiers-method	Unique Identifiers
get_samples	Working With Samples
get_samples-method	Working With Samples
get_totals	Row Sums
get_totals-method	Row Sums
groups	Working With Groups

-- H --

hist	Histogram of Compositional Data
hist-method	Histogram of Compositional Data
hongite	Hongite Mineralogy

-- I --

identifiers	Unique Identifiers
is_assigned	Working With Groups
is_assigned-method	Working With Groups
is_replicated	Working With Samples
is_replicated-method	Working With Samples

-- M --

mahalanobis	Mahalanobis Distance
mahalanobis-method	Mahalanobis Distance
margin	Marginal Compositions
margin-method	Marginal Compositions
mean	Compositional Mean
mean-method	Compositional Mean
metric_sd	Metric Variance and Standard Deviation
metric_sd-method	Metric Variance and Standard Deviation
metric_var	Metric Variance and Standard Deviation
metric_var-method	Metric Variance and Standard Deviation
missing	Missing Values Policy
mix	Mixed-Mode Analysis
mix-method	Mixed-Mode Analysis

-- O --

outliers	Outlier Detection
outliers-method	Outlier Detection

-- P --

pca-method	Principal Components Analysis
pca_coda	Principal Components Analysis
perturbation	Perturbation Operation
perturbation-method	Perturbation Operation
petrography	Can Sora Petrographic Data
plot	Plot Compositional Data
plot-method	Plot Compositional Data
plot-method	Plot Log-Ratios
plot-method	Plot Outliers
plot_logratio	Plot Log-Ratios
plot_outliers	Plot Outliers
powering	Powering Operation
powering-method	Powering Operation

-- Q --

quantile	Sample Quantiles
quantile-method	Sample Quantiles

-- R --

replace_NA	Missing Values Replacement
replace_NA-method	Missing Values Replacement
replace_zero	Zero-Replacement
replace_zero-method	Zero-Replacement

-- S --

samples	Working With Samples
scalar	Scalar Product
scalar-method	Scalar Product
scale	Scaling and Centering of Compositional Data
scale-method	Scaling and Centering of Compositional Data
set_groups-method	Working With Groups
set_groups<-	Working With Groups
set_groups<--method	Working With Groups
set_identifiers-method	Unique Identifiers
set_identifiers<-	Unique Identifiers
set_identifiers<--method	Unique Identifiers
set_samples-method	Working With Samples
set_samples<-	Working With Samples
set_samples<--method	Working With Samples
set_totals-method	Row Sums
set_totals<-	Row Sums
set_totals<--method	Row Sums
slides	Thin Sections
split	Divide into Groups
split-method	Divide into Groups
subset	Extract or Replace Parts of an Object

-- T --

totals	Row Sums
transform_alr	Additive Log-Ratios (ALR)
transform_alr-method	Additive Log-Ratios (ALR)
transform_clr	Centered Log-Ratios (CLR)
transform_clr-method	Centered Log-Ratios (CLR)
transform_ilr	Isometric Log-Ratios (ILR)
transform_ilr-method	Isometric Log-Ratios (ILR)
transform_inverse	Inverse Log-Ratio Transformation
transform_inverse-method	Inverse Log-Ratio Transformation
transform_lr	Pairwise Log-Ratios (LR)
transform_lr-method	Pairwise Log-Ratios (LR)
transform_plr	Pivot Log-Ratios (PLR)
transform_plr-method	Pivot Log-Ratios (PLR)

-- V --

variation	Variation Matrix
variation-method	Variation Matrix

-- misc --

%perturbe%	Operations in the Simplex
%perturbe%-method	Operations in the Simplex
%power%	Operations in the Simplex
%power%-method	Operations in the Simplex
[-method	Extract or Replace Parts of an Object
[<--method	Extract or Replace Parts of an Object
[[-method	Extract or Replace Parts of an Object
[[<--method	Extract or Replace Parts of an Object
`%perturbe%`-method	Operations in the Simplex
`%power%`-method	Operations in the Simplex