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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("TitanCNA")
In most cases, you don't need to download the package archive at all.
TitanCNA
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Subclonal copy number and LOH prediction from whole genome sequencing of tumours
Bioconductor version: Release (3.5)
Hidden Markov model to segment and predict regions of subclonal copy number alterations (CNA) and loss of heterozygosity (LOH), and estimate cellular prevalenece of clonal clusters in tumour whole genome sequencing data.
Author: Gavin Ha, Sohrab P Shah
Maintainer: Gavin Ha <gavinha at broadinstitute.org>, Sohrab P Shah <sshah at bccrc.ca>
Citation (from within R,
enter citation("TitanCNA")):
Installation
To install this package, start R and enter:
## try http:// if https:// URLs are not supported
source("https://bioconductor.org/biocLite.R")
biocLite("TitanCNA")
Documentation
To view documentation for the version of this package installed in your system, start R and enter:
browseVignettes("TitanCNA")
| R Script | TitanCNA | |
| Reference Manual | ||
| Text | README |
Details
| biocViews | CopyNumberVariation, DNASeq, ExomeSeq, Genetics, GenomicVariation, HiddenMarkovModel, Sequencing, Software, StatisticalMethod, WholeGenome |
| Version | 1.14.0 |
| In Bioconductor since | BioC 2.14 (R-3.1) (3.5 years) |
| License | GPL-3 |
| Depends | R (>= 3.2.0), foreach (>= 1.4.2), IRanges(>= 2.2.4), GenomicRanges(>= 1.20.5), Rsamtools(>= 1.20.4), GenomeInfoDb(>= 1.4.0) |
| Imports | |
| LinkingTo | |
| Suggests | |
| SystemRequirements | |
| Enhances | |
| URL | https://github.com/gavinha/TitanCNA |
| Depends On Me | |
| Imports Me | |
| Suggests Me | |
| Build Report |
Package Archives
Follow Installation instructions to use this package in your R session.
| Source Package | TitanCNA_1.14.0.tar.gz |
| Windows Binary | TitanCNA_1.14.0.zip (32- & 64-bit) |
| Mac OS X 10.11 (El Capitan) | TitanCNA_1.14.0.tgz |
| Source Repository | git clone https://git.bioconductor.org/packages/TitanCNA |
| Package Short Url | http://bioconductor.org/packages/TitanCNA/ |
| Package Downloads Report | Download Stats |
Documentation »
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