Package: TreeDimensionTest 0.0.2

TreeDimensionTest: Trajectory Presence and Heterogeneity in Multivariate Data

Testing for trajectory presence and heterogeneity on multivariate data. Two statistical methods (Tenha & Song 2022) <doi:10.1371/journal.pcbi.1009829> are implemented. The tree dimension test quantifies the statistical evidence for trajectory presence. The subset specificity measure summarizes pattern heterogeneity using the minimum subtree cover. There is no user tunable parameters for either method. Examples are included to illustrate how to use the methods on single-cell data for studying gene and pathway expression dynamics and pathway expression specificity.

Authors:Lovemore Tenha [aut], Joe Song [aut, cre]

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TreeDimensionTest.pdf |TreeDimensionTest.html
TreeDimensionTest/json (API)
NEWS

# Install 'TreeDimensionTest' in R:
install.packages('TreeDimensionTest', repos = c('https://joemsong.r-universe.dev', 'https://cloud.r-project.org'))
Uses libs:
  • c++– GNU Standard C++ Library v3

On CRAN:

Conda:

This package does not link to any Github/Gitlab/R-forge repository. No issue tracker or development information is available.

cpp

2.70 score 1 scripts 164 downloads 4 exports 26 dependencies

Last updated 3 years agofrom:92d770f047. Checks:12 OK. Indexed: yes.

TargetResultLatest binary
Doc / VignettesOKMar 07 2025
R-4.5-win-x86_64OKMar 07 2025
R-4.5-mac-x86_64OKMar 07 2025
R-4.5-mac-aarch64OKMar 07 2025
R-4.5-linux-x86_64OKMar 07 2025
R-4.4-win-x86_64OKMar 07 2025
R-4.4-mac-x86_64OKMar 07 2025
R-4.4-mac-aarch64OKMar 07 2025
R-4.4-linux-x86_64OKMar 07 2025
R-4.3-win-x86_64OKMar 07 2025
R-4.3-mac-x86_64OKMar 07 2025
R-4.3-mac-aarch64OKMar 07 2025

Exports:compute.statsempirical.distributionsseparabilitytest.trajectory

Dependencies:clicpp11fitdistrplusglueGPArotationigraphlatticelifecyclemagrittrMASSMatrixmlpackmnormtnFactorsnlmepkgconfigpsychrbibutilsRColorBrewerRcppRcppArmadilloRcppEnsmallenRdpackrlangsurvivalvctrs

Tutorial: Using the 'TreeDimensionTest' package

Rendered fromTutorial.Rmdusingknitr::rmarkdownon Mar 07 2025.

Last update: 2022-03-12
Started: 2022-01-20