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: Release (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
Suggests
System Requirements
URL
Depends On Me
Imports Me
Suggests Me

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 (32- & 64-bit)
Mac OS X 10.6 (Snow Leopard) Clomial_1.2.0.tgz
Mac OS X 10.9 (Mavericks) Clomial_1.2.0.tgz
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