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Provides a comprehensive 'Shiny' application for analyzing Whole Genome Duplication ('WGD') events. This package provides a user-friendly 'Shiny' web application for non-experienced researchers to prepare input data and execute command lines for several well-known 'WGD' analysis tools, including 'wgd', 'ksrates', 'i-ADHoRe', 'OrthoFinder', and 'Whale'. This package also provides the source code for experienced researchers to adjust and install the package to their own server. Key Features 1) Input Data Preparation This package allows users to conveniently upload and format their data, making it compatible with various 'WGD' analysis tools. 2) Command Line Generation This package automatically generates the necessary command lines for selected 'WGD' analysis tools, reducing manual errors and saving time. 3) Visualization This package offers interactive visualizations to explore and interpret 'WGD' results, facilitating in-depth 'WGD' analysis. 4) Comparative Genomics Users can study and compare 'WGD' events across different species, aiding in evolutionary and comparative genomics studies. 5) User-Friendly Interface This 'Shiny' web application provides an intuitive and accessible interface, making 'WGD' analysis accessible to researchers and 'bioinformaticians' of all levels.
| Version: | 1.0.0 |
| Imports: | shiny, shinyalert, stringr, vroom, fs, tidyr, data.table, dplyr, ape, ks, mclust, htmltools, seqinr, httr, jsonlite |
| Suggests: | tidyverse, knitr, rmarkdown, DT, argparse, bslib, bsplus, english, fontawesome, igraph, shinyBS, shinyFiles, shinyWidgets, shinyjs, stringi, tools, testthat (≥ 3.0.0) |
| Published: | 2024-11-13 |
| DOI: | 10.32614/CRAN.package.shinyWGD |
| Author: | Jia Li [aut, cre], Zhen Li [ctb], Arthur Zwaenepoel [ctb] |
| Maintainer: | Jia Li <li081766 at gmail.com> |
| License: | GPL-3 |
| NeedsCompilation: | no |
| SystemRequirements: | pandoc (>= 1.12.3), pandoc-citeproc |
| Materials: | README |
| CRAN checks: | shinyWGD results |
| Reference manual: | shinyWGD.pdf |
| Package source: | shinyWGD_1.0.0.tar.gz |
| Windows binaries: | r-devel: shinyWGD_1.0.0.zip, r-release: shinyWGD_1.0.0.zip, r-oldrel: shinyWGD_1.0.0.zip |
| macOS binaries: | r-release (arm64): shinyWGD_1.0.0.tgz, r-oldrel (arm64): shinyWGD_1.0.0.tgz, r-release (x86_64): shinyWGD_1.0.0.tgz, r-oldrel (x86_64): shinyWGD_1.0.0.tgz |
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These binaries (installable software) and packages are in development.
They may not be fully stable and should be used with caution. We make no claims about them.