TCGAbiolinksGUI

DOI: 10.18129/B9.bioc.TCGAbiolinksGUI    

This package is for version 3.7 of Bioconductor; for the stable, up-to-date release version, see TCGAbiolinksGUI.

"TCGAbiolinksGUI: A Graphical User Interface to analyze cancer molecular and clinical data"

Bioconductor version: 3.7

"TCGAbiolinksGUI: A Graphical User Interface to analyze cancer molecular and clinical data. A demo version of GUI is found in https://tcgabiolinksgui.shinyapps.io/tcgabiolinks/"

Author: Tiago Chedraoui Silva <tiagochst at gmail.com>, Antonio Colaprico <antonio.colaprico at ulb.ac.be>, Catharina Olsen <colsen at ulb.ac.be>, Michele Ceccarelli, Gianluca Bontempi <gbonte at ulb.ac.be>, Benjamin P. Berman <Benjamin.Berman at cshs.org>, Houtan Noushmehr <houtana at gmail.com>

Maintainer: Tiago C. Silva <tiagochst at gmail.com>

Installation

To install this package, start R and enter:

## try http:// if https:// URLs are not supported
source("https://bioconductor.org/biocLite.R")
biocLite("TCGAbiolinksGUI")

Documentation

To view documentation for the version of this package installed in your system, start R and enter:

browseVignettes("TCGAbiolinksGUI")

 

HTML	R Script	1. Introduction
HTML	R Script	2. Data menu
HTML		3. Analysis menu
HTML		4. Integrative analysis menu
HTML		5. Cases study
PDF		Reference Manual
Text		NEWS

Details

biocViews	DNAMethylation, DNASeq, DifferentialExpression, DifferentialMethylation, GUI, GeneExpression, GeneRegulation, Genetics, MethylationArray, Network, Pathways, Sequencing, Software, StatisticalMethod
Version	1.6.1
In Bioconductor since	BioC 3.5 (R-3.4) (1.5 years)
License	GPL (>= 3)
Depends	R (>= 3.3.1), shinydashboard (>= 0.5.3), TCGAbiolinksGUI.data
Imports	shiny (>= 0.14.1), downloader (>= 0.4), grid, DT, plotly, readr, maftools, stringr (>= 1.1.0), SummarizedExperiment, ggrepel, data.table, minfi, caret, IlluminaHumanMethylation450kanno.ilmn12.hg19, IlluminaHumanMethylation450kmanifest, IlluminaHumanMethylation27kmanifest, IlluminaHumanMethylation27kanno.ilmn12.hg19, IlluminaHumanMethylationEPICanno.ilm10b2.hg19, IlluminaHumanMethylationEPICmanifest, shinyFiles (>= 0.6.2), ggplot2 (>= 2.1.0), pathview, ELMER(>= 2.0.0), clusterProfiler, parallel, TCGAbiolinks(>= 2.5.5), shinyjs (>= 0.7), colourpicker, shinyBS (>= 0.61)
LinkingTo
Suggests	testthat, dplyr, knitr, roxygen2, devtools, rvest, xml2, BiocStyle, animation, pander
SystemRequirements
Enhances
URL
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	TCGAbiolinksGUI_1.6.1.tar.gz
Windows Binary	TCGAbiolinksGUI_1.6.1.zip
Mac OS X 10.11 (El Capitan)	TCGAbiolinksGUI_1.6.1.tgz
Source Repository	git clone https://git.bioconductor.org/packages/TCGAbiolinksGUI
Source Repository (Developer Access)	git clone git@git.bioconductor.org:packages/TCGAbiolinksGUI
Package Short Url	http://bioconductor.org/packages/TCGAbiolinksGUI/
Package Downloads Report	Download Stats