Sourcing Archaeological Materials by Chemical Composition

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Documentation for package ‘nexus’ version 0.5.0

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

Help Pages

A B C D G H I K L M P Q R S T U V W misc

-- A --

aggregate	Compute Summary Statistics of Data Subsets
aggregate-method	Compute Summary Statistics of Data Subsets
all_assigned	Grouping Metadata
all_assigned-method	Grouping Metadata
any_assigned	Grouping Metadata
any_assigned-method	Grouping Metadata
arctic	Arctic Lake
arithmetic	Operations in the Simplex
as.data.frame	Coerce to a Data Frame
as.data.frame-method	Coerce to a Data Frame
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_graph	Graph of Log-ratios
as_graph-method	Graph of Log-ratios

-- B --

barplot	Barplot of Compositional Data
barplot-method	Barplot of Compositional Data
bind	Combine Two Composition Matrices
boxite	Boxite Mineralogy

-- C --

chemistry	Chemical Elements and Oxides
closure	Closure Operation
closure-method	Closure Operation
condense	Compositional Mean of Data Subsets
condense-method	Compositional Mean of Data Subsets
covariance	Covariance Matrix
covariance-method	Covariance Matrix
coxite	Coxite Mineralogy

-- D --

describe	Data Description
describe-method	Data Description
detect_outlier	Outlier Detection
detect_outlier-method	Outlier Detection
dist	Distances
dist-method	Distances

-- G --

get	Get or Set Parts of an Object
group	Working With Groups
group-method	Working With Groups
group_indices	Grouping Metadata
group_indices-method	Grouping Metadata
group_length	Grouping Metadata
group_length-method	Grouping Metadata
group_levels	Grouping Metadata
group_levels-method	Grouping Metadata
group_metadata	Grouping Metadata
group_names	Grouping Metadata
group_names-method	Grouping Metadata
group_rows	Grouping Metadata
group_rows-method	Grouping Metadata
group_size	Grouping Metadata
group_size-method	Grouping Metadata
group_split	Divide into Groups
group_split-method	Divide into Groups
group_subset	Group-based Subset
group_subset-method	Group-based Subset

-- H --

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

-- I --

is_assigned	Grouping Metadata
is_assigned-method	Grouping Metadata
is_element_major	Chemical Elements and Oxides
is_element_major-method	Chemical Elements and Oxides
is_element_minor	Chemical Elements and Oxides
is_element_minor-method	Chemical Elements and Oxides
is_element_trace	Chemical Elements and Oxides
is_element_trace-method	Chemical Elements and Oxides
is_outlier	Outlier Detection
is_outlier-method	Outlier Detection
is_oxide	Chemical Elements and Oxides
is_oxide-method	Chemical Elements and Oxides

-- K --

kongite

Kongite Mineralogy

-- L --

labels-method	Get or Set Parts of an Object
lava	Skye Lavas Compositions
lra	Principal Components Analysis

-- M --

mahalanobis	Mahalanobis Distance
mahalanobis-method	Mahalanobis Distance
margin	Marginal Compositions
margin-method	Marginal Compositions
mean	Compositional Mean
mean-method	Compositional Mean
missing	Missing Values Policy
mix	Mixed-Mode Analysis
mix-method	Mixed-Mode Analysis
mutators	Get or Set Parts of an Object

-- P --

pairs	Plot Compositional Data
pairs-method	Plot Compositional Data
pca	Principal Components Analysis
pca-method	Principal Components Analysis
perturbation	Perturbation Operation
perturbation-method	Perturbation Operation
pip	Proportionality Index of Parts (PIP)
pip-method	Proportionality Index of Parts (PIP)
plot	Plot Log-Ratios
plot-method	Plot Log-Ratios
plot-method	Plot Outliers
plot_outlier	Plot Outliers
powering	Powering Operation
powering-method	Powering Operation
predator	Predator-Prey Compositions

-- Q --

quantile	Sample Quantiles
quantile-method	Sample Quantiles

-- R --

rbind2-method	Combine Two Composition Matrices
replace_NA	Missing Values Replacement
replace_NA-method	Missing Values Replacement
replace_zero	Zero-Replacement
replace_zero-method	Zero-Replacement

-- S --

scalar	Scalar Product
scalar-method	Scalar Product
scale	Scaling and Centering of Compositional Data
scale-method	Scaling and Centering of Compositional Data
set	Get or Set Parts of an Object
slides	Thin Sections Compositions
split-method	Divide into Groups
subset	Extract or Replace Parts of an Object

-- T --

totals	Row Sums
totals-method	Row Sums
totals<-	Row Sums
totals<--method	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)

-- U --

ungroup	Working With Groups
ungroup-method	Working With Groups

-- V --

variance	Log-Ratios Variances
variance-method	Log-Ratios Variances
variance_total	Total Variance
variance_total-method	Total Variance
variation	Variation Matrix
variation-method	Variation Matrix

-- W --

weights-method

Get or Set Parts of an Object

-- 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
`%perturbe%`-method	Operations in the Simplex
`%power%`-method	Operations in the Simplex