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, Seurat, singleCellTK |
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