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seqCNA

This package is deprecated. It will probably be removed from Bioconductor. Please refer to the package end-of-life guidelines for more information.

This package is for version 3.18 of Bioconductor. This package has been removed from Bioconductor. For the last stable, up-to-date release version, see seqCNA.annot.

Copy number analysis of high-throughput sequencing cancer data


Bioconductor version: Release (3.18)

Copy number analysis of high-throughput sequencing cancer data with fast summarization, extensive filtering and improved normalization

Author: David Mosen-Ansorena

Maintainer: David Mosen-Ansorena <dmosen.gn at cicbiogune.es>

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

Installation

To install this package, start R (version "4.3") and enter:


if (!require("BiocManager", quietly = TRUE))
    install.packages("BiocManager")

BiocManager::install("seqCNA")

For older versions of R, please refer to the appropriate Bioconductor release.

Documentation

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

browseVignettes("seqCNA")
seqCNA.pdf PDF R Script
Reference Manual PDF

Details

biocViews CopyNumberVariation, Genetics, Sequencing, Software
Version 1.48.0
In Bioconductor since BioC 2.13 (R-3.0) (10.5 years)
License GPL-3
Depends R (>= 3.0), GLAD(>= 2.14), doSNOW (>= 1.0.5), adehabitatLT (>= 0.3.4), seqCNA.annot(>= 0.99), methods
Imports
System Requirements samtools
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Package Archives

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

Source Package seqCNA_1.48.0.tar.gz
Windows Binary seqCNA_1.48.0.zip
macOS Binary (x86_64) seqCNA_1.48.0.tgz
macOS Binary (arm64) seqCNA_1.48.0.tgz
Source Repository git clone https://git.bioconductor.org/packages/seqCNA
Source Repository (Developer Access) git clone git@git.bioconductor.org:packages/seqCNA
Package Short Url https://bioconductor.org/packages/seqCNA/
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