Package: DDRTree2
Type: Package
Title: Learning Principal Graphs with DDRTree (Performance-Optimized
        Fork)
Version: 0.2.0
Date: 2025-10-03
Authors@R: c(
    person("Xiaojie", "Qiu", role = c("aut"), email = "xqiu@uw.edu"),
    person("Cole", "Trapnell", role = "aut"),
    person("Qi", "Mao", role = "aut"),
    person("Li", "Wang", role = "aut"),
    person("Billsfriend", role = c("cre", "ctb"), 
           email = "Billsfriend1999@outlook.com",
           comment = "OpenMP parallelization and performance optimizations"))
Author: Xiaojie Qiu [aut], Cole Trapnell [aut], Qi Mao [aut], Li Wang
        [aut], Billsfriend [cre, ctb] (OpenMP parallelization and
        performance optimizations)
Maintainer: Billsfriend <Billsfriend1999@outlook.com>
Depends: irlba
Imports: Rcpp
LinkingTo: Rcpp, RcppEigen, BH
Description: Provides an implementation of the framework of reversed
        graph embedding (RGE) which projects data into a reduced
        dimensional space while constructing 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 single cell
        genomics data. In general, it could be used to reconstruct the
        temporal progression as well as bifurcation structure of any
        datatype. This version includes OpenMP parallelization for
        significant performance improvements (11x speedup on typical
        datasets).
License: Artistic-2.0 | file LICENSE
URL: https://github.com/Billsfriend/DDRTree2
BugReports: https://github.com/Billsfriend/DDRTree2/issues
RoxygenNote: 7.3.3
Encoding: UTF-8
SystemRequirements: OpenMP (optional, for parallel execution)
NeedsCompilation: yes
Note: This is a performance-optimized fork of the original CRAN package
        (v0.1.5) by Xiaojie Qiu et al. The original algorithm and core
        functionality remain unchanged. Modifications include OpenMP
        parallelization and code optimizations for improved performance
        on large datasets.
Repository: https://billsfriend.r-universe.dev
Date/Publication: 2025-10-11 09:24:07 UTC
RemoteUrl: https://github.com/billsfriend/DDRTree2
RemoteRef: HEAD
RemoteSha: f30bc84052d4950ec192d7f3976121dbc7f9303f
Packaged: 2026-07-08 09:38:55 UTC; root