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.

Version: 0.0.2
Depends: mlpack
Imports: fitdistrplus, igraph, nFactors, Rcpp (≥ 1.0.2), RColorBrewer, Rdpack
LinkingTo: Rcpp
Suggests: knitr, rmarkdown, testthat
Published: 2022-03-12
Author: Lovemore Tenha ORCID iD [aut], Joe Song ORCID iD [aut, cre]
Maintainer: Joe Song <joemsong at cs.nmsu.edu>
License: LGPL (≥ 3)
NeedsCompilation: yes
Citation: TreeDimensionTest citation info
Materials: README NEWS
CRAN checks: TreeDimensionTest results

Documentation:

Reference manual: TreeDimensionTest.pdf
Vignettes: Tutorial: Using the 'TreeDimensionTest' package

Downloads:

Package source: TreeDimensionTest_0.0.2.tar.gz
Windows binaries: r-devel: TreeDimensionTest_0.0.2.zip, r-release: TreeDimensionTest_0.0.2.zip, r-oldrel: TreeDimensionTest_0.0.2.zip
macOS binaries: r-release (arm64): TreeDimensionTest_0.0.2.tgz, r-release (x86_64): TreeDimensionTest_0.0.2.tgz, r-oldrel: TreeDimensionTest_0.0.2.tgz
Old sources: TreeDimensionTest archive

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