ClustAssess: Tools for Assessing Clustering

A set of tools for evaluating clustering robustness using proportion of ambiguously clustered pairs (Senbabaoglu et al. (2014) <doi:10.1038/srep06207>), as well as similarity across methods and method stability using element-centric clustering comparison (Gates et al. (2019) <doi:10.1038/s41598-019-44892-y>). Additionally, this package enables stability-based parameter assessment for graph-based clustering pipelines typical in single-cell data analysis.

Version:	1.0.0
Depends:	R (≥ 4.0.0), methods, stats
Imports:	dplyr, DT, fastcluster, foreach, glue, Gmedian, ggnewscale, ggplot2, ggrastr, ggrepel, ggtext, gprofiler2, igraph, jsonlite, leiden, Matrix (≥ 1.5.0), matrixStats, progress, stringr, paletteer, plotly, qualpalr, RANN, reshape2, rlang, Seurat, shiny, shinyjs, shinyLP, shinyWidgets, utils, uwot, vioplot
LinkingTo:	Rcpp, RcppEigen
Suggests:	BiocManager, colourpicker, ComplexHeatmap, data.table, DelayedMatrixStats, devtools, doParallel, knitr, leidenbase, monocle3, patchwork, ragg, reticulate, rhdf5, RhpcBLASctl, rmarkdown, scales, SeuratObject, SharedObject, styler, testthat (≥ 3.0.0)
Published:	2025-01-31
DOI:	10.32614/CRAN.package.ClustAssess
Author:	Andi Munteanu [aut, cre], Arash Shahsavari [aut], Rafael Kollyfas [ctb], Miguel Larraz Lopez de Novales [aut], Liviu Ciortuz [ctb], Irina Mohorianu [aut]
Maintainer:	Andi Munteanu <am3019 at cam.ac.uk>
BugReports:	https://github.com/Core-Bioinformatics/ClustAssess/issues
License:	MIT + file LICENSE
URL:	https://github.com/Core-Bioinformatics/ClustAssess, https://core-bioinformatics.github.io/ClustAssess/
NeedsCompilation:	yes
Additional_repositories:	https://blaserlab.r-universe.dev
Citation:	ClustAssess citation info
Materials:	README
CRAN checks:	ClustAssess results

Documentation:

Reference manual:

ClustAssess.pdf

Downloads:

Package source:	ClustAssess_1.0.0.tar.gz
Windows binaries:	r-devel: ClustAssess_1.0.0.zip, r-release: ClustAssess_1.0.0.zip, r-oldrel: ClustAssess_1.0.0.zip
macOS binaries:	r-devel (arm64): ClustAssess_1.0.0.tgz, r-release (arm64): ClustAssess_1.0.0.tgz, r-oldrel (arm64): ClustAssess_1.0.0.tgz, r-devel (x86_64): ClustAssess_1.0.0.tgz, r-release (x86_64): ClustAssess_1.0.0.tgz, r-oldrel (x86_64): ClustAssess_1.0.0.tgz
Old sources:	ClustAssess archive

Linking:

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