POpulation-based Evaluation Metrics

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Documentation for package ‘poem’ version 1.0.0

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

Help Pages

CDbw	Calculate CDbw index
CHAOS	Calculate CHAOS score
dbcv	Calculate DBCV Metric
ELSA	Calculate ELSA scores
emb2knn	Computes k nearest neighbors from embedding
emb2snn	Computes shared nearest neighbors from embedding
findSpatialKNN	Find the k nearest spatial neighbors
fuzzyHardMetrics	Compute fuzzy-hard versions of pair-sorting partition metrics
fuzzyHardSpotConcordance	Per-element maximal concordance between a hard and a fuzzy partition
fuzzyPartitionMetrics	Compute fuzzy-fuzzy versions of pair-sorting partition metrics
fuzzySpotConcordance	Per-element concordance between two fuzzy partitions
getEmbeddingMetrics	Compute embedding-based metrics
getFuzzyLabel	Get fuzzy representation of labels
getFuzzyPartitionMetrics	Compute external metrics for fuzzy clusterings
getGraphMetrics	Compute graph-based metrics
getNeighboringPairConcordance	Per-element local concordance between a clustering and a ground truth
getPairConcordance	Per-element pair concordance score
getPartitionMetrics	Compute partition-based metrics
getSpatialExternalMetrics	Calculate Spatial External Metrics
getSpatialExternalMetrics-method	Calculate Spatial External Metrics
getSpatialInternalMetrics	Compute internal metrics for spatial data
getSpatialInternalMetrics-method	Compute internal metrics for spatial data
knnComposition	Compute neighborhood composition
matchSets	Match two partitions using Hungarian algorithm
metric_info	Metrics Information
mockData	Generate mock multidimensional data
noisy_moon	The noisy moon dataset
PAS	Calculate PAS score
spatialARI	Spatially aware ARI from Yan, Yinqiao, et al. (2025).
sp_toys	Toy examples of spatial data
toyExamples	Toy embedding examples