To install this package, start R and enter:

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

In most cases, you don't need to download the package archive at all.

BubbleTree

   

This package is for version 3.3 of Bioconductor; for the stable, up-to-date release version, see BubbleTree.

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

Bioconductor version: 3.3

CNV analysis in groups of tumor samples (Publication Pending).

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

HTML R Script BubbleTree Tutorial
PDF   Reference Manual
Text   NEWS

Details

biocViews CopyNumberVariation, Coverage, Sequencing, Software
Version 2.2.2
In Bioconductor since BioC 3.1 (R-3.2) (1.5 years)
License LGPL (>= 3)
Depends R (>= 3.2.1), IRanges, GenomicRanges, plyr, dplyr, magrittr
Imports BiocGenerics(>= 0.7.5), BiocStyle, Biobase, ggplot2, WriteXLS, gtools, RColorBrewer, limma, grid, gtable, gridExtra, biovizBase, rainbow, e1071
LinkingTo
Suggests methods, knitr, rmarkdown
SystemRequirements
Enhances
URL
Depends On Me
Imports Me
Suggests Me
Build Report  

Package Archives

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

Package Source BubbleTree_2.2.2.tar.gz
Windows Binary BubbleTree_2.2.2.zip
Mac OS X 10.9 (Mavericks) BubbleTree_2.2.2.tgz
Subversion source (username/password: readonly)
Git source https://github.com/Bioconductor-mirror/BubbleTree/tree/release-3.3
Package Short Url http://bioconductor.org/packages/BubbleTree/
Package Downloads Report Download Stats

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