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cff-version: 1.2.0
message: 'To cite package "DDRTree2" in publications use:'
type: software
license: Artistic-2.0
title: 'DDRTree2: Learning Principal Graphs with DDRTree (Performance-Optimized Fork)'
version: 0.2.0
doi: 10.32614/CRAN.package.DDRTree2
abstract: 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).
authors:
- family-names: Qiu
  given-names: Xiaojie
  email: xqiu@uw.edu
- family-names: Trapnell
  given-names: Cole
- family-names: Mao
  given-names: Qi
- family-names: Wang
  given-names: Li
- name: Billsfriend
  email: Billsfriend1999@outlook.com
repository: https://billsfriend.r-universe.dev
repository-code: https://github.com/Billsfriend/DDRTree2
commit: f30bc84052d4950ec192d7f3976121dbc7f9303f
url: https://github.com/Billsfriend/DDRTree2
date-released: '2025-10-03'
contact:
- name: Billsfriend
  email: Billsfriend1999@outlook.com