scDHA: Single-Cell Decomposition using Hierarchical Autoencoder

Provides a fast and accurate pipeline for single-cell analyses. The 'scDHA' software package can perform clustering, dimension reduction and visualization, classification, and time-trajectory inference on single-cell data (Tran (2021) <doi:10.1038/s41467-021-21312-2>).

Version: 1.2.1
Depends: R (≥ 3.4)
Imports: matrixStats, foreach, doParallel, igraph, Matrix, uwot, cluster, Rcpp, RcppParallel, RcppAnnoy, methods, torch (≥ 0.3.0), RhpcBLASctl, coro
LinkingTo: Rcpp, RcppArmadillo, RcppParallel, RcppAnnoy
Suggests: testthat, knitr, mclust
Published: 2023-04-04
Author: Duc Tran [aut, cre], Tin Nguyen [fnd], Klaus Schliep [ctb], Hao Chen [ctb], Shibiao Wan [ctb]
Maintainer: Duc Tran <duct at>
License: GPL-3
Copyright: see file COPYRIGHTS
NeedsCompilation: yes
Citation: scDHA citation info
Materials: README NEWS
CRAN checks: scDHA results


Reference manual: scDHA.pdf
Vignettes: scDHA package manual


Package source: scDHA_1.2.1.tar.gz
Windows binaries: r-devel:, r-release:, r-oldrel:
macOS binaries: r-release (arm64): scDHA_1.2.1.tgz, r-oldrel (arm64): scDHA_1.2.1.tgz, r-release (x86_64): scDHA_1.2.1.tgz, r-oldrel (x86_64): scDHA_1.2.1.tgz
Old sources: scDHA archive


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