ADAMgui

DOI: 10.18129/B9.bioc.ADAMgui    

This is the development version of ADAMgui; to use it, please install the devel version of Bioconductor.

Activity and Diversity Analysis Module Graphical User Interface

Bioconductor version: Development (3.10)

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

Installation

To install this package, start R (version "3.6") and enter:

if (!requireNamespace("BiocManager", quietly = TRUE))
    install.packages("BiocManager")

# The following initializes usage of Bioc devel
BiocManager::install(version='devel')

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 1.1.0
In Bioconductor since BioC 3.9 (R-3.6) (< 6 months)
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 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_1.1.0.tar.gz
Windows Binary ADAMgui_1.1.0.zip
Mac OS X 10.11 (El Capitan) ADAMgui_1.1.0.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 http://bioconductor.org/packages/ADAMgui/
Package Downloads Report Download Stats

Documentation »

Bioconductor

R / CRAN packages and documentation

Support »

Please read the posting guide. Post questions about Bioconductor to one of the following locations: