DOI: 10.18129/B9.bioc.Rariant    

This package is for version 3.8 of Bioconductor; for the stable, up-to-date release version, see Rariant.

Identification and Assessment of Single Nucleotide Variants through Shifts in Non-Consensus Base Call Frequencies

Bioconductor version: 3.8

The 'Rariant' package identifies single nucleotide variants from sequencing data based on the difference of binomially distributed mismatch rates between matched samples.

Author: Julian Gehring, Simon Anders, Bernd Klaus

Maintainer: Julian Gehring <jg-bioc at gmx.com>

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biocViews GenomicVariation, Sequencing, Software, SomaticMutation, StatisticalMethod, VariantDetection, Visualization
Version 1.18.0
In Bioconductor since BioC 2.14 (R-3.1) (5 years)
License GPL-3
Depends R (>= 3.0.2), GenomicRanges, VariantAnnotation
Imports methods, BiocGenerics, S4Vectors, IRanges, GenomeInfoDb, ggbio, ggplot2, exomeCopy, SomaticSignatures, Rsamtools, shiny, VGAM, dplyr, reshape2
Suggests h5vcData, testthat, knitr, optparse, BSgenome.Hsapiens.UCSC.hg19
URL https://github.com/juliangehring/Rariant
BugReports https://support.bioconductor.org
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Source Package Rariant_1.18.0.tar.gz
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Source Repository (Developer Access) git clone git@git.bioconductor.org:packages/Rariant
Package Short Url http://bioconductor.org/packages/Rariant/
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