shinyTempSignal: Explore Temporal and Other Phylogenetic Signals

Sequences sampled at different time points can be used to infer molecular phylogenies on natural time scales, but if the sequences records inaccurate sampling times, that are not the actual sampling times, then it will affect the molecular phylogenetic analysis. This shiny application helps exploring temporal characteristics of the evolutionary trees through linear regression analysis and with the ability to identify and remove incorrect labels. The method was extended to support exploring other phylogenetic signals under strict and relaxed models.

Version: 0.0.7
Depends: R (≥ 3.3.0)
Imports: ape, forecast, ggplot2, ggprism, ggpmisc, ggtree, golem (≥ 0.3.1), shiny (≥ 1.6.0), shinydashboard, shinyjs, shinyWidgets, stats, treeio, yulab.utils (≥ 0.1.4), nlme
Suggests: attempt, conflicted, config (≥ 0.3.1), glue, htmltools, knitr, prettydoc, processx, rmarkdown, testthat (≥ 3.0.0)
Published: 2024-02-21
Author: Guangchuang Yu ORCID iD [aut, cre, cph], Xiao Luo [ctb], Li Zhan [ctb], Xuanan Zhu [ctb], Jianfeng Lin [ctb]
Maintainer: Guangchuang Yu <guangchuangyu at gmail.com>
BugReports: https://github.com/YuLab-SMU/shinyTempSignal/issues
License: GPL-3
URL: https://github.com/YuLab-SMU/shinyTempSignal
NeedsCompilation: no
Materials: README NEWS
CRAN checks: shinyTempSignal results

Documentation:

Reference manual: shinyTempSignal.pdf
Vignettes: shinyTempSignal introduction

Downloads:

Package source: shinyTempSignal_0.0.7.tar.gz
Windows binaries: r-devel: shinyTempSignal_0.0.6.zip, r-release: shinyTempSignal_0.0.7.zip, r-oldrel: shinyTempSignal_0.0.7.zip
macOS binaries: r-release (arm64): shinyTempSignal_0.0.7.tgz, r-oldrel (arm64): shinyTempSignal_0.0.7.tgz, r-release (x86_64): shinyTempSignal_0.0.7.tgz
Old sources: shinyTempSignal archive

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