conos: Clustering on Network of Samples

Wires together large collections of single-cell RNA-seq datasets, which allows for both the identification of recurrent cell clusters and the propagation of information between datasets in multi-sample or atlas-scale collections. 'Conos' focuses on the uniform mapping of homologous cell types across heterogeneous sample collections. For instance, users could investigate a collection of dozens of peripheral blood samples from cancer patients combined with dozens of controls, which perhaps includes samples of a related tissue such as lymph nodes. This package interacts with data available through the 'conosPanel' package, which is available in a 'drat' repository. To access this data package, see the instructions at <>. The size of the 'conosPanel' package is approximately 12 MB.

Version: 1.5.2
Depends: R (≥ 3.5.0), Matrix, igraph
Imports: abind, cowplot, ComplexHeatmap, dendextend, dplyr, ggplot2, ggrepel, gridExtra, irlba, leidenAlg, magrittr, methods, N2R, parallel, R6, reshape2, rlang, Rtsne, sccore (≥ 1.0.0), stats, tools, utils
LinkingTo: Rcpp, RcppArmadillo, RcppEigen, RcppProgress
Suggests: AnnotationDbi, BiocParallel, conosPanel, drat, DESeq2, entropy, ggrastr, GO.db, jsonlite, knitr,,, p2data, pagoda2, PMA, plyr, rhdf5, rmarkdown, rmumps, Seurat, shinycssloaders, SummarizedExperiment, testthat, tibble, uwot, zoo
Published: 2024-02-26
DOI: 10.32614/CRAN.package.conos
Author: Viktor Petukhov [aut], Nikolas Barkas [aut], Peter Kharchenko [aut], Weiliang Qiu [ctb], Evan Biederstedt [aut, cre]
Maintainer: Evan Biederstedt <evan.biederstedt at>
License: GPL-3
Copyright: See the file COPYRIGHTS for various conos copyright details
conos copyright details
NeedsCompilation: yes
Materials: README
In views: Omics
CRAN checks: conos results


Reference manual: conos.pdf


Package source: conos_1.5.2.tar.gz
Windows binaries: r-devel:, r-release:, r-oldrel:
macOS binaries: r-release (arm64): conos_1.5.2.tgz, r-oldrel (arm64): conos_1.5.0.tgz, r-release (x86_64): conos_1.5.2.tgz, r-oldrel (x86_64): conos_1.5.2.tgz
Old sources: conos archive

Reverse dependencies:

Reverse suggests: CRMetrics, scITD


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