DDRTree: Learning Principal Graphs with DDRTree

Provides an implementation of the framework of reversed graph embedding (RGE) which projects data into a reduced dimensional space while constructs a principal tree which passes through the middle of the data simultaneously. DDRTree shows superiority to alternatives (Wishbone, DPT) for inferring the ordering as well as the intrinsic structure of the single cell genomics data. In general, it could be used to reconstruct the temporal progression as well as bifurcation structure of any datatype.

Version:	0.1.6
Depends:	irlba
Imports:	Rcpp
LinkingTo:	Rcpp, RcppEigen, BH
Published:	2026-03-03
DOI:	10.32614/CRAN.package.DDRTree
Author:	Xiaojie Qiu [aut], Cole Trapnell [aut], Qi Mao [aut], Li Wang [aut], Brent Ewing [cre]
Maintainer:	Brent Ewing <bge at uw.edu>
License:	Artistic License 2.0
NeedsCompilation:	yes
Materials:	README, NEWS
CRAN checks:	DDRTree results

Documentation:

Reference manual:

DDRTree.html , DDRTree.pdf

Downloads:

Package source:	DDRTree_0.1.6.tar.gz
Windows binaries:	r-devel: DDRTree_0.1.6.zip, r-release: DDRTree_0.1.6.zip, r-oldrel: DDRTree_0.1.6.zip
macOS binaries:	r-release (arm64): DDRTree_0.1.6.tgz, r-oldrel (arm64): DDRTree_0.1.6.tgz, r-release (x86_64): DDRTree_0.1.6.tgz, r-oldrel (x86_64): DDRTree_0.1.6.tgz
Old sources:	DDRTree archive

Reverse dependencies:

Reverse depends:

monocle

Linking:

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