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Calculate the concordex coefficient

Bioconductor version: Release (3.19)

Many analysis workflows include approximation of a nearest neighbors graph followed by clustering of the graph structure. The concordex coefficient estimates the concordance between the graph and clustering results. The package 'concordexR' is an R implementation of the original concordex Python-based command line tool.

Author: Kayla Jackson [aut, cre] , A. Sina Booeshaghi [aut] , Angel Galvez-Merchan [aut] , Lambda Moses [aut] , Laura Luebbert [ctb] , Lior Pachter [aut, rev, ths]

Maintainer: Kayla Jackson <kaylajac at>

Citation (from within R, enter citation("concordexR")):


To install this package, start R (version "4.4") and enter:

if (!require("BiocManager", quietly = TRUE))


For older versions of R, please refer to the appropriate Bioconductor release.


To view documentation for the version of this package installed in your system, start R and enter:

concordex-demo HTML R Script
overview HTML R Script
Reference Manual PDF


biocViews Clustering, GraphAndNetwork, SingleCell, Software
Version 1.4.0
In Bioconductor since BioC 3.17 (R-4.3) (1 year)
License Artistic-2.0
Depends R (>= 4.2)
Imports BiocParallel, cli, DelayedArray, ggplot2, Matrix, methods, pheatmap, rlang, scales
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Suggests BiocNeighbors, BiocStyle, bluster, covr, knitr, patchwork, rmarkdown, scater, TENxPBMCData, testthat (>= 3.0.0), vdiffr
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Follow Installation instructions to use this package in your R session.

Source Package concordexR_1.4.0.tar.gz
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macOS Binary (x86_64) concordexR_1.4.0.tgz
macOS Binary (arm64) concordexR_1.4.0.tgz
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