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ADAMgui

Activity and Diversity Analysis Module Graphical User Interface


Bioconductor version: Release (3.18)

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 [aut], André Luiz Molan [ctb], Agnes Takeda [ctb], Jose Rybarczyk Filho [ctb, cre, ths]

Maintainer: Jose Luiz Rybarczyk Filho <jose.luiz at unesp.br>

Citation (from within R, enter citation("ADAMgui")):

Installation

To install this package, start R (version "4.3") 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 PDF
NEWS Text

Details

biocViews GeneSetEnrichment, KEGG, Pathways, Software
Version 1.18.0
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
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Package Archives

Follow Installation instructions to use this package in your R session.

Source Package ADAMgui_1.18.0.tar.gz
Windows Binary ADAMgui_1.18.0.zip
macOS Binary (x86_64) ADAMgui_1.18.0.tgz
macOS Binary (arm64) ADAMgui_1.18.0.tgz
Source Repository git clone https://git.bioconductor.org/packages/ADAMgui
Source Repository (Developer Access) git clone git@git.bioconductor.org:packages/ADAMgui
Bioc Package Browser https://code.bioconductor.org/browse/ADAMgui/
Package Short Url https://bioconductor.org/packages/ADAMgui/
Package Downloads Report Download Stats