Sourcing Archaeological Materials by Chemical Composition

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Documentation for package ‘nexus’ version 0.6.0

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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 Grouped Data
all_assigned-method Grouped Data
any_assigned Grouped Data
any_assigned-method Grouped Data
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
boxplot Boxplot of Log-Ratios
boxplot-method Boxplot of Log-Ratios

-- 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 Weights
group Group by One or More Variables
group-method Group by One or More Variables
group_factor Grouping Metadata
group_factor-method Grouping Metadata
group_indices Grouping Metadata
group_indices-method Grouping Metadata
group_levels Grouping Metadata
group_levels-method Grouping Metadata
group_n Grouping Metadata
group_n-method 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 Grouped Data
is_assigned-method Grouped Data
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 Labels
labels-method Labels
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

-- 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 Weights
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 Group by One or More Variables
ungroup-method Group by One or More Variables

-- 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 Weights
weights-method Weights

-- 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