ADAMgui

DOI: 10.18129/B9.bioc.ADAMgui    

This package is for version 3.15 of Bioconductor; for the stable, up-to-date release version, see ADAMgui.

Activity and Diversity Analysis Module Graphical User Interface

Bioconductor version: 3.15

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>

Installation

To install this package, start R (version "4.2") 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")

 

HTML	R Script	Using ADAMgui
PDF		Reference Manual
Text		NEWS

Details

biocViews	GeneSetEnrichment, KEGG, Pathways, Software
Version	1.12.0
In Bioconductor since	BioC 3.9 (R-3.6) (3.5 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
LinkingTo
Suggests	markdown, BiocStyle
SystemRequirements
Enhances
URL	TBA
BugReports	https://github.com/jrybarczyk/ADAMgui/issues
Depends On Me
Imports Me
Suggests Me
Links To Me
Build Report

Package Archives

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

Source Package	ADAMgui_1.12.0.tar.gz
Windows Binary	ADAMgui_1.12.0.zip
macOS Binary (x86_64)	ADAMgui_1.12.0.tgz
Source Repository	git clone https://git.bioconductor.org/packages/ADAMgui
Source Repository (Developer Access)	git clone git@git.bioconductor.org:packages/ADAMgui
Package Short Url	https://bioconductor.org/packages/ADAMgui/
Package Downloads Report	Download Stats