DESCRIPTION

Package: YAPSA
Type: Package
Title: Yet Another Package for Signature Analysis
Version: 0.99.10
Date: 2015-08-04
Author: Daniel Huebschmann, Zuguang Gu, Matthias Schlesner
Maintainer: Daniel Huebschmann <huebschmann.daniel@googlemail.com>
Imports:
    lsei,
    SomaticSignatures,
    VariantAnnotation,
    GenomeInfoDb,
    reshape2,
    gridExtra,
    corrplot,
    dendextend,
    GetoptLong,
    circlize,
    gtrellis,
    PMCMR,
    ComplexHeatmap,
    KEGGREST,
    grDevices
Depends:
    R (>= 3.3.0),
    GenomicRanges,
    ggplot2,
    grid
Description: This package provides functions and routines useful in
    the analysis of somatic signatures (cf. L. Alexandrov et al., Nature
    2013). In particular, functions to perform a signature analysis with
    known signatures (LCD = linear combination decomposition) and a
    signature analysis on stratified mutational catalogue (SMC = stratify
    mutational catalogue) are provided.
License: GPL-3
Suggests:
    BSgenome.Hsapiens.UCSC.hg19,
    testthat,
    BiocStyle,
    knitr,
    rmarkdown
VignetteBuilder: knitr
LazyLoad: yes
biocViews: Sequencing, DNASeq, SomaticMutation, Visualization,
    Clustering, GenomicVariation, StatisticalMethod, BiologicalQuestion
RoxygenNote: 5.0.1