harmony: Fast, Sensitive, and Accurate Integration of Single Cell Data
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: | 1.2.4 |
| 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: | 2025-10-10 |
| 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 |
Documentation:
| Reference manual: | harmony.html ,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) |
Downloads:
| Package source: | harmony_1.2.4.tar.gz |
| Windows binaries: | r-devel:harmony_1.2.4.zip, r-release:harmony_1.2.4.zip, r-oldrel:harmony_1.2.4.zip |
| macOS binaries: | r-release (arm64):harmony_1.2.4.tgz, r-oldrel (arm64):harmony_1.2.4.tgz, r-release (x86_64):harmony_1.2.4.tgz, r-oldrel (x86_64):harmony_1.2.4.tgz |
| Old sources: | harmony archive |
Reverse dependencies:
| Reverse imports: | clustSIGNAL,lemur,PRECAST,ProFAST,RaceID,scAnnotate,SCdeconR,symphony |
| Reverse suggests: | Banksy,Platypus,Seurat,singleCellTK,SVP |
Linking:
Please use the canonical formhttps://CRAN.R-project.org/package=harmonyto link to this page.