BubbleTree

DOI: 10.18129/B9.bioc.BubbleTree    

BubbleTree: an intuitive visualization to elucidate tumoral aneuploidy and clonality in somatic mosaicism using next generation sequencing data

Bioconductor version: Release (3.7)

CNV analysis in groups of tumor samples.

Author: Wei Zhu <zhuw at medimmune.com>, Michael Kuziora <kuzioram at medimmune.com>, Todd Creasy <creasyt at medimmune.com>, Brandon Higgs <higgsb at medimmune.com>

Maintainer: Todd Creasy <creasyt at medimmune.com>, Wei Zhu <weizhu365 at gmail.com>

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

Installation

To install this package, start R and enter:

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

Documentation

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

browseVignettes("BubbleTree")

 

HTML R Script BubbleTree Tutorial
PDF   Reference Manual
Text   NEWS

Details

biocViews CopyNumberVariation, Coverage, Sequencing, Software
Version 2.10.0
In Bioconductor since BioC 3.1 (R-3.2) (3.5 years)
License LGPL (>= 3)
Depends R (>= 3.3), IRanges, GenomicRanges, plyr, dplyr, magrittr
Imports BiocGenerics(>= 0.7.5), BiocStyle, Biobase, ggplot2, WriteXLS, gtools, RColorBrewer, limma, grid, gtable, gridExtra, biovizBase, e1071, methods, grDevices, stats, utils
LinkingTo
Suggests knitr, rmarkdown
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 BubbleTree_2.10.0.tar.gz
Windows Binary BubbleTree_2.10.0.zip
Mac OS X 10.11 (El Capitan) BubbleTree_2.10.0.tgz
Source Repository git clone https://git.bioconductor.org/packages/BubbleTree
Source Repository (Developer Access) git clone git@git.bioconductor.org:packages/BubbleTree
Package Short Url http://bioconductor.org/packages/BubbleTree/
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