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Implementation of the Harmony algorithm for single cell integration, described in Korsunsky et al <doi:10.1038/s41592-019-0619-0>. Package includes a standalone Harmony function and interfaces to external frameworks.
Version: | 1.2.1 |
Depends: | R (≥ 3.5.0), Rcpp |
Imports: | dplyr, cowplot, ggplot2, Matrix, methods, tibble, rlang, RhpcBLASctl |
LinkingTo: | Rcpp, RcppArmadillo, RcppProgress |
Suggests: | SingleCellExperiment, Seurat (≥ 4.1.1), testthat, knitr, rmarkdown, ggthemes, ggrepel, patchwork, tidyverse, tidyr, data.table |
Published: | 2024-08-27 |
DOI: | 10.32614/CRAN.package.harmony |
Author: | Ilya Korsunsky [cre, aut], Martin Hemberg [aut], Nikolaos Patikas [aut, ctb], Hongcheng Yao [aut, ctb], Nghia Millard [aut], Jean Fan [aut, ctb], Kamil Slowikowski [aut, ctb], Miles Smith [ctb], Soumya Raychaudhuri [aut] |
Maintainer: | Ilya Korsunsky <ilya.korsunsky at gmail.com> |
License: | GPL-3 |
URL: | https://github.com/immunogenomics/harmony |
NeedsCompilation: | yes |
Materials: | NEWS |
CRAN checks: | harmony results |
Reference manual: | harmony.pdf |
Vignettes: |
Using harmony in Seurat (source, R code) Detailed Walkthrough of Harmony Algorithm (source, R code) Quick start to Harmony (source, R code) |
Package source: | harmony_1.2.1.tar.gz |
Windows binaries: | r-devel: harmony_1.2.1.zip, r-release: harmony_1.2.1.zip, r-oldrel: harmony_1.2.1.zip |
macOS binaries: | r-release (arm64): harmony_1.2.1.tgz, r-oldrel (arm64): harmony_1.2.1.tgz, r-release (x86_64): harmony_1.2.1.tgz, r-oldrel (x86_64): harmony_1.2.1.tgz |
Old sources: | harmony archive |
Reverse imports: | lemur, ProFAST, RaceID, scAnnotate, SCdeconR, SCIntRuler, symphony |
Reverse suggests: | Banksy, Platypus, Seurat, singleCellTK |
Please use the canonical form https://CRAN.R-project.org/package=harmony 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.