Package: SigsPack
Type: Package
Title: Mutational Signature Estimation for Single Samples
Version: 1.27.0
Author: Franziska Schumann <franziska.schumann@student.hpi.de>
Maintainer: Franziska Schumann <franziska.schumann@student.hpi.de>
Description: 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.
License: GPL-3
Encoding: UTF-8
Depends: R (>= 3.6)
biocViews: SomaticMutation, SNP, VariantAnnotation,
        BiomedicalInformatics, DNASeq
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
VignetteBuilder: knitr
BiocViews:
BugReports: https://github.com/bihealth/SigsPack/issues
URL: https://github.com/bihealth/SigsPack
Collate: bootstrap_mut_catalogues.R cosmicSigs.R sigProfilerExome.R
        sigProfiler20190522.R create_mut_catalogues.R decomposeQP.R
        get_context_freq.R hg19context_freq.R normalize.R
        plot_bootstrapped_exposure.R signature_exposure.R
        summarize_exposures.R vcf2mut_cat.R
RoxygenNote: 6.1.1
LazyData: true
Config/pak/sysreqs: make libbz2-dev liblzma-dev libpng-dev libxml2-dev
        libssl-dev xz-utils zlib1g-dev
Repository: https://bioc.r-universe.dev
Date/Publication: 2026-04-28 12:50:44 UTC
RemoteUrl: https://github.com/bioc/SigsPack
RemoteRef: HEAD
RemoteSha: c0b05f0f0ae4ef548330319e164150276f355cf4
NeedsCompilation: no
Packaged: 2026-07-04 05:21:11 UTC; root