The hardware and bandwidth for this mirror is donated by METANET, the Webhosting and Full Service-Cloud Provider.
If you wish to report a bug, or if you are interested in having us mirror your free-software or open-source project, please feel free to contact us at mirror[@]metanet.ch.

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 <https://github.com/kharchenkolab/conos>. 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, org.Hs.eg.db, org.Mm.eg.db, 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 gmail.com>
BugReports: https://github.com/kharchenkolab/conos/issues
License: GPL-3
Copyright: See the file COPYRIGHTS for various conos copyright details
conos copyright details
URL: https://github.com/kharchenkolab/conos
NeedsCompilation: yes
Additional_repositories: https://kharchenkolab.github.io/drat/
Materials: README
In views: Omics
CRAN checks: conos results

Documentation:

Reference manual: conos.pdf

Downloads:

Package source: conos_1.5.2.tar.gz
Windows binaries: r-devel: conos_1.5.2.zip, r-release: conos_1.5.2.zip, r-oldrel: conos_1.5.2.zip
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

Linking:

Please use the canonical form https://CRAN.R-project.org/package=conos to link to this page.

These binaries (installable software) and packages are in development.
They may not be fully stable and should be used with caution. We make no claims about them.