To install this package, start R and enter:

source("http://bioconductor.org/biocLite.R")
biocLite("Clomial")

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

Clomial

Infers clonal composition of a tumor

Bioconductor version: 3.0

Clomial fits binomial distributions to counts obtained from Next Gen Sequencing data of multiple samples of the same tumor. The trained parameters can be interpreted to infer the clonal structure of the tumor.

Author: Habil Zare and Alex Hu

Maintainer: Habil Zare <zare at u.washington.edu>

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

Installation

To install this package, start R and enter:

source("http://bioconductor.org/biocLite.R")
biocLite("Clomial")

Documentation

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

browseVignettes("Clomial")

PDF		A likelihood maximization approach to infer the clonal structure of a cancer using multiple tumor samples
PDF		Reference Manual
Text		NEWS

Details

biocViews	Bayesian, Clustering, DNASeq, ExomeSeq, GeneticVariability, Genetics, MultipleComparison, Sequencing, Software, TargetedResequencing
Version	1.2.0
In Bioconductor since	BioC 2.14 (R-3.1)
License	GPL (>= 2)
Depends	R (>= 2.10), matrixStats
Imports	methods, permute
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Build Report

Package Archives

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

Package Source	Clomial_1.2.0.tar.gz
Windows Binary	Clomial_1.2.0.zip
Mac OS X 10.6 (Snow Leopard)	Clomial_1.2.0.tgz
Mac OS X 10.9 (Mavericks)	Clomial_1.2.0.tgz
Browse/checkout source	(username/password: readonly)
Package Downloads Report	Download Stats

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