Package: poem
Title: POpulation-based Evaluation Metrics
Version: 1.2.0
Authors@R: c(
    person("Siyuan", "Luo", email="roseluosy@gmail.com", role=c("cre","aut"), comment=c(ORCID="0009-0007-6404-3244")),
    person("Pierre-Luc", "Germain", email="pierre-luc.germain@hest.ethz.ch", role=c("aut","ctb"),
           comment=c(ORCID="0000-0003-3418-4218")))
Description: This package provides a comprehensive set of external and
        internal evaluation metrics. It includes metrics for assessing
        partitions or fuzzy partitions derived from clustering results,
        as well as for evaluating subpopulation identification results
        within embeddings or graph representations. Additionally, it
        provides metrics for comparing spatial domain detection results
        against ground truth labels, and tools for visualizing spatial
        errors.
BugReports: https://github.com/RoseYuan/poem/issues
License: GPL (>= 3)
URL: https://roseyuan.github.io/poem/
Encoding: UTF-8
Roxygen: list(markdown = TRUE)
RoxygenNote: 7.3.2
Depends: R (>= 4.1.0)
Imports: aricode, BiocNeighbors, BiocParallel, bluster, clevr, clue,
        cluster, elsa, fclust, igraph, Matrix, matrixStats, mclustcomp,
        methods, pdist, sp, spdep, stats, utils, SpatialExperiment,
        SummarizedExperiment
Suggests: testthat (>= 3.0.0), BiocStyle, knitr, DT, dplyr, kableExtra,
        scico, cowplot, ggnetwork, ggplot2, tidyr, STexampleData
VignetteBuilder: knitr
biocViews: DimensionReduction, Clustering, GraphAndNetwork, Spatial,
        ATACSeq, SingleCell, RNASeq, Software, Visualization
Config/testthat/edition: 3
Config/pak/sysreqs: libabsl-dev cmake libgdal-dev gdal-bin libgeos-dev
        libglpk-dev libmagick++-dev gsfonts libicu-dev libxml2-dev
        libssl-dev libproj-dev libsqlite3-dev libudunits2-dev
        zlib1g-dev
Repository: https://bioc-release.r-universe.dev
Date/Publication: 2025-10-29 15:34:48 UTC
RemoteUrl: https://github.com/bioc/poem
RemoteRef: RELEASE_3_22
RemoteSha: e248fd34a5e9083ebf524203d3b7d3e8333ea8db
NeedsCompilation: no
Packaged: 2026-02-02 09:21:05 UTC; root
Author: Siyuan Luo [cre, aut] (ORCID: <https://orcid.org/0009-0007-6404-3244>),
  Pierre-Luc Germain [aut, ctb] (ORCID:
    <https://orcid.org/0000-0003-3418-4218>)
Maintainer: Siyuan Luo <roseluosy@gmail.com>
Built: R 4.5.2; ; 2026-02-02 09:57:53 UTC; unix
