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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("Clomial")
In most cases, you don't need to download the package archive at all.
Clomial
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This package is for version 3.3 of Bioconductor; for the stable, up-to-date release version, see Clomial.
Infers clonal composition of a tumor
Bioconductor version: 3.3
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:
## try http:// if https:// URLs are not supported
source("https://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")
| R Script | A likelihood maximization approach to infer the clonal structure of a cancer using multiple tumor samples | |
| Reference Manual | ||
| Text | NEWS |
Details
| biocViews | Bayesian, Clustering, DNASeq, ExomeSeq, GeneticVariability, Genetics, MultipleComparison, Sequencing, Software, TargetedResequencing |
| Version | 1.8.0 |
| In Bioconductor since | BioC 2.14 (R-3.1) (2.5 years) |
| License | GPL (>= 2) |
| Depends | R (>= 2.10), matrixStats |
| Imports | methods, permute |
| LinkingTo | |
| Suggests | |
| 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 | Clomial_1.8.0.tar.gz |
| Windows Binary | Clomial_1.8.0.zip |
| Mac OS X 10.9 (Mavericks) | Clomial_1.8.0.tgz |
| Subversion source | (username/password: readonly) |
| Git source | https://github.com/Bioconductor-mirror/Clomial/tree/release-3.3 |
| Package Short Url | http://bioconductor.org/packages/Clomial/ |
| Package Downloads Report | Download Stats |
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