DOI: 10.18129/B9.bioc.SigsPack  

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

Mutational Signature Estimation for Single Samples

Bioconductor version: 3.16

Single sample estimation of exposure to mutational signatures. Exposures to known mutational signatures are estimated for single samples, based on quadratic programming algorithms. Bootstrapping the input mutational catalogues provides estimations on the stability of these exposures. The effect of the sequence composition of mutational context can be taken into account by normalising the catalogues.

Author: Franziska Schumann <franziska.schumann at>

Maintainer: Franziska Schumann <franziska.schumann at>

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


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biocViews BiomedicalInformatics, DNASeq, SNP, Software, SomaticMutation, VariantAnnotation
Version 1.12.0
In Bioconductor since BioC 3.10 (R-3.6) (3.5 years)
License GPL-3
Depends R (>= 3.6)
Imports quadprog (>= 1.5-5), methods, Biobase, BSgenome(>= 1.46.0), VariantAnnotation(>= 1.24.5), Biostrings, GenomeInfoDb, GenomicRanges, rtracklayer, SummarizedExperiment, graphics, stats, utils
Suggests IRanges, BSgenome.Hsapiens.UCSC.hg19, BiocStyle, knitr, rmarkdown
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