ADAMgui
This package is for version 3.9 of Bioconductor; for the stable, up-to-date release version, see ADAMgui.
Activity and Diversity Analysis Module Graphical User Interface
Bioconductor version: 3.9
ADAMgui is a Graphical User Interface for the ADAM package. The ADAMgui package provides 2 shiny-based applications that allows the user to study the output of the ADAM package files through different plots. It's possible, for example, to choose a specific GFAG and observe the gene expression behavior with the plots created with the GFAGtargetUi function. Features such as differential expression and foldchange can be easily seen with aid of the plots made with GFAGpathUi function.
Author: Giordano Bruno Sanches Seco <giordano.bruno at unesp.br>, André Luiz Molan <andre.molan at unesp.br>, Agnes Alessandra Sekijima Takeda <agnes.takeda at unesp.br>, Jose Luiz Rybarczyk Filho <jose.luiz at unesp.br>
Maintainer: Jose Luiz Rybarczyk Filho <jose.luiz at unesp.br>
citation("ADAMgui")):
Installation
To install this package, start R (version "3.6") and enter:
if (!require("BiocManager", quietly = TRUE))
install.packages("BiocManager")
BiocManager::install("ADAMgui")
For older versions of R, please refer to the appropriate Bioconductor release.
Documentation
To view documentation for the version of this package installed in your system, start R and enter:
browseVignettes("ADAMgui")| Using ADAMgui | HTML | R Script |
| Reference Manual | ||
| NEWS | Text |
Details
| biocViews | GeneSetEnrichment, KEGG, Pathways, Software |
| Version | 1.0.0 |
| In Bioconductor since | BioC 3.9 (R-3.6) (5 years) |
| License | GPL (>= 2) |
| Depends | R (>= 3.6), stats, utils, methods, ADAM |
| Imports | GO.db(>= 3.5.0), dplyr (>= 0.7.6), shiny (>= 1.1.0), stringr (>= 1.3.1), stringi (>= 1.2.4), varhandle (>= 2.0.3), ggplot2 (>= 3.0.0), ggrepel (>= 0.8.0), ggpubr (>= 0.1.8), ggsignif (>= 0.4.0), reshape2 (>= 1.4.3), RColorBrewer (>= 1.1-2), colorRamps (>= 2.3), DT (>= 0.4), data.table (>= 1.11.4), gridExtra (>= 2.3), shinyjs (>= 1.0), knitr, testthat |
| System Requirements | |
| URL | TBA |
| Bug Reports | https://github.com/jrybarczyk/ADAMgui/issues |
See More
| Suggests | BiocStyle |
| Linking To | |
| Enhances | |
| Depends On Me | |
| Imports Me | |
| Suggests Me | |
| Links To Me | |
| Build Report | Build Report |
Package Archives
Follow Installation instructions to use this package in your R session.
| Source Package | ADAMgui_1.0.0.tar.gz |
| Windows Binary | ADAMgui_1.0.0.zip |
| Mac OS X 10.11 (El Capitan) | ADAMgui_1.0.0.tgz |
| Source Repository | git clone https://git.bioconductor.org/packages/ADAMgui |
| Source Repository (Developer Access) | git clone [email protected]:packages/ADAMgui |
| Bioc Package Browser | https://code.bioconductor.org/browse/ADAMgui/ |
| Package Short Url | https://bioconductor.org/packages/ADAMgui/ |
| Package Downloads Report | Download Stats |
| Old Source Packages for BioC 3.9 | Source Archive |