- Home
- Bioconductor 2.14
- Software Packages
- Clomial
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: 2.14
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")
| 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 | 1.0.0 |
| In Bioconductor since | BioC 2.14 (R-3.1) |
| License | GPL (>= 2) |
| Depends | R (>= 2.10), matrixStats |
| Imports | methods |
| 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_1.0.0.tar.gz |
| Windows Binary | Clomial_1.0.0.zip (32- & 64-bit) |
| Mac OS X 10.6 (Snow Leopard) | Clomial_1.0.0.tgz |
| Mac OS X 10.9 (Mavericks) | Clomial_1.0.0.tgz |
| Browse/checkout source | (username/password: readonly) |
| Package Downloads Report | Download Stats |
Common Bioconductor workflows include:
- Oligonucleotide Arrays
- High-throughput Sequencing
- Counting Reads for Differential Expression (parathyroideSE vignette)
- Annotation
- Annotating Variants
- Annotating Ranges
- Flow Cytometry and other assays
- Candidate Binding Sites for Known Transcription Factors
- Cloud-enabled cis-eQTL search and annotation
Post questions about Bioconductor packages to our mailing lists. Read the posting guide before posting!
Contact us: support.bioconductor.org
Hosting provided by Fred Hutchinson Cancer Research Center
Copyright © 2003 - 2014
