Package: MutationalPatterns
Type: Package
Title: Comprehensive genome-wide analysis of mutational processes
Description: An extensive toolset for the characterization and visualization
    of a wide range of mutational patterns in base substitution catalogs.
Version: 1.8.0
Date: 2018-10-19
Author: Francis Blokzijl, Roel Janssen, Ruben van Boxtel, Edwin Cuppen
Maintainer: Roel Janssen <[email protected]>,
    Francis Blokzijl <[email protected]>
License: MIT + file LICENSE
URL: https://doi.org/10.1186/s13073-018-0539-0
Imports:
    stats,
    parallel,
    S4Vectors,
    BiocGenerics (>= 0.18.0),
    VariantAnnotation (>= 1.18.1),
    reshape2 (>= 1.4.1),
    plyr (>= 1.8.3),
    ggplot2 (>= 2.1.0),
    pracma (>= 1.8.8),
    SummarizedExperiment (>= 1.2.2),
    IRanges (>= 2.6.0),
    GenomeInfoDb (>= 1.12.0),
    Biostrings (>= 2.40.0),
    ggdendro (>= 0.1-20),
    cowplot (>= 0.9.2)
Depends:
    R (>= 3.4.0),
    GenomicRanges (>= 1.24.0),
    NMF (>= 0.20.6)
Suggests:
    BSgenome (>= 1.40.0),
    BSgenome.Hsapiens.1000genomes.hs37d5 (>= 0.99.1),
    BSgenome.Hsapiens.UCSC.hg19 (>= 1.4.0),
    BiocStyle (>= 2.0.3),
    TxDb.Hsapiens.UCSC.hg19.knownGene (>= 3.2.2),
    biomaRt (>= 2.28.0),
    gridExtra (>= 2.2.1),
    rtracklayer (>= 1.32.2),
    testthat
biocViews: Genetics, SomaticMutation
ZipData: NA
LazyData: false
RoxygenNote: 6.0.1
Encoding: UTF-8