DOI: 10.18129/B9.bioc.decompTumor2Sig    

This package is for version 3.10 of Bioconductor; for the stable, up-to-date release version, see decompTumor2Sig.

Decomposition of individual tumors into mutational signatures by signature refitting

Bioconductor version: 3.10

Uses quadratic programming for signature refitting, i.e., to decompose the mutation catalog from an individual tumor sample into a set of given mutational signatures (either Alexandrov-model signatures or Shiraishi-model signatures), computing weights that reflect the contributions of the signatures to the mutation load of the tumor.

Author: Rosario M. Piro [aut, cre], Sandra Krueger [ctb]

Maintainer: Rosario M. Piro <rmpiro at>

Citation (from within R, enter citation("decompTumor2Sig")):


To install this package, start R (version "3.6") and enter:

if (!requireNamespace("BiocManager", quietly = TRUE))


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


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



HTML R Script A brief introduction to decompTumor2Sig
PDF   Reference Manual
Text   NEWS


biocViews BiologicalQuestion, BiomedicalInformatics, DNASeq, Genetics, GenomicVariation, SNP, Sequencing, Software, SomaticMutation, StatisticalMethod
Version 2.2.0
In Bioconductor since BioC 3.9 (R-3.6) (1 year)
License GPL-2
Depends R (>= 3.6), ggplot2
Imports methods, Matrix, quadprog (>= 1.5-5), vcfR, GenomicRanges, stats, GenomicFeatures, Biostrings, BiocGenerics, S4Vectors, plyr, utils, graphics, BSgenome.Hsapiens.UCSC.hg19, TxDb.Hsapiens.UCSC.hg19.knownGene, VariantAnnotation, SummarizedExperiment, ggseqlogo, gridExtra, data.table
Suggests knitr, rmarkdown, BiocStyle
Depends On Me
Imports Me
Suggests Me
Links To Me
Build Report  

Package Archives

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

Source Package decompTumor2Sig_2.2.0.tar.gz
Windows Binary (32- & 64-bit)
Mac OS X 10.11 (El Capitan) decompTumor2Sig_2.2.0.tgz
Source Repository git clone
Source Repository (Developer Access) git clone
Package Short Url
Package Downloads Report Download Stats

Documentation »


R / CRAN packages and documentation

Support »

Please read the posting guide. Post questions about Bioconductor to one of the following locations: