shinyTempSignal: Explore Temporal and Other Phylogenetic Signals (original) (raw)

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:	0.0.8
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:	2024-03-06
DOI:	10.32614/CRAN.package.shinyTempSignal
Author:	Guangchuang Yu [aut, cre, cph], Xiao Luo [ctb], Li Zhan [ctb], Xuanan Zhu [ctb], Jianfeng Lin [ctb]
Maintainer:	Guangchuang Yu
BugReports:	https://github.com/YuLab-SMU/shinyTempSignal/issues
License:	GPL-3
URL:	https://github.com/YuLab-SMU/shinyTempSignal,https://www.sciencedirect.com/science/article/pii/S167385272400033X
NeedsCompilation:	no
Citation:	shinyTempSignal citation info
Materials:	README NEWS
CRAN checks:	shinyTempSignal results

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