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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
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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 |
| 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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