DOI: 10.18129/B9.bioc.TitanCNA  

This package is for version 3.16 of Bioconductor; for the stable, up-to-date release version, see TitanCNA.

Subclonal copy number and LOH prediction from whole genome sequencing of tumours

Bioconductor version: 3.16

Hidden Markov model to segment and predict regions of subclonal copy number alterations (CNA) and loss of heterozygosity (LOH), and estimate cellular prevalence of clonal clusters in tumour whole genome sequencing data.

Author: Gavin Ha

Maintainer: Gavin Ha <gha at fredhutch.org>

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biocViews CopyNumberVariation, DNASeq, ExomeSeq, Genetics, GenomicVariation, HiddenMarkovModel, ImmunoOncology, Sequencing, Software, StatisticalMethod, WholeGenome
Version 1.36.0
In Bioconductor since BioC 2.14 (R-3.1) (9 years)
License GPL-3
Depends R (>= 3.5.1)
Imports BiocGenerics(>= 0.31.6), IRanges(>= 2.6.1), GenomicRanges(>= 1.24.3), VariantAnnotation(>= 1.18.7), foreach (>= 1.4.3), GenomeInfoDb(>= 1.8.7), data.table (>= 1.10.4), dplyr (>= 0.5.0)
URL https://github.com/gavinha/TitanCNA
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Source Package TitanCNA_1.36.0.tar.gz
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