Function reference
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as_amounts()
- Coerce to Amounts
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as_composition()
- Coerce to a Closed Compositional Matrix
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as_features()
- Coerce to Features
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`%perturbe%`
`%power%`
- Operations in the Simplex
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closure()
- Closure Operation
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perturbation()
- Perturbation Operation
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powering()
- Powering Operation
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scalar()
- Scalar Product
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transform_alr()
- Additive Log-Ratios (ALR)
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transform_clr()
- Centered Log-Ratios (CLR)
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transform_ilr()
- Isometric Log-Ratios (ILR)
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transform_inverse()
- Inverse Log-Ratio Transformation
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transform_lr()
- Pairwise Log-Ratios (LR)
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transform_plr()
- Pivot Log-Ratios (PLR)
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aggregate(<CompositionMatrix>)
- Compute Summary Statistics of Data Subsets
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covariance()
- Covariance Matrix
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dist(<CompositionMatrix>)
- Distances
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mahalanobis(<CompositionMatrix>)
mahalanobis(<ILR>)
- Mahalanobis Distance
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margin()
- Marginal Compositions
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mean(<CompositionMatrix>)
- Compositional Mean
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metric_var()
metric_sd()
- Metric Variance and Standard Deviation
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quantile(<CompositionMatrix>)
- Sample Quantiles
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scale(<CompositionMatrix>)
- Scaling and Centering of Compositional Data
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variation()
- Variation Matrix
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as_graph()
- Graph of Log-ratios
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barplot(<CompositionMatrix>)
- Barplot of Compositional Data
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hist(<CompositionMatrix>)
- Histogram of Compositional Data
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plot(<CompositionMatrix>,<missing>)
- Plot Compositional Data
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plot(<LogRatio>,<missing>)
- Plot Log-Ratios
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missing
- Missing Values Policy
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replace_NA(<CompositionMatrix>)
- Missing Values Replacement
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replace_zero(<CompositionMatrix>)
- Zero-Replacement
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outliers()
- Outlier Detection
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plot(<OutlierIndex>,<missing>)
- Plot Outliers
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pca(<CompositionMatrix>)
pca(<LogRatio>)
- Principal Components Analysis
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mix()
- Mixed-Mode Analysis
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any_assigned()
is_assigned()
get_groups()
`set_groups<-`()
- Working With Groups
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get_identifiers()
`set_identifiers<-`()
- Unique Identifiers
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any_replicated()
is_replicated()
get_samples()
`set_samples<-`()
- Working With Samples
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split(<CompositionMatrix>)
split(<LogRatio>)
- Divide into Groups
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`[`(<CompositionMatrix>,<missing>,<missing>,<missing>)
`[`(<CompositionMatrix>,<missing>,<missing>,<logical>)
`[`(<CompositionMatrix>,<index>,<missing>,<missing>)
`[`(<CompositionMatrix>,<index>,<missing>,<logical>)
`[`(<CompositionMatrix>,<missing>,<index>,<missing>)
`[`(<CompositionMatrix>,<missing>,<index>,<logical>)
`[`(<CompositionMatrix>,<index>,<index>,<missing>)
`[`(<CompositionMatrix>,<index>,<index>,<logical>)
`[[`(<OutlierIndex>,<index>,<ANY>)
`[<-`(<CompositionMatrix>)
`[[<-`(<CompositionMatrix>)
- Extract or Replace Parts of an Object
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get_totals()
`set_totals<-`()
- Row Sums
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arctic
- Arctic Lake
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chemistry
- Can Sora Chemical Data
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hongite
- Hongite Mineralogy
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petrography
- Can Sora Petrographic Data
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slides
- Thin Sections