Package: MinimumDistance
Title: A Package for De Novo CNV Detection in Case-Parent Trios
Version: 1.47.0
Date: 2017-04-29
Author: Robert B Scharpf and Ingo Ruczinski
Authors@R: person("Robert", "Scharpf", email="rscharpf@jhu.edu", role=c("aut", "cre"))
Description: Analysis of de novo copy number variants in trios from high-dimensional genotyping platforms.
License: Artistic-2.0
Depends:
    R (>= 3.5.0),
    VanillaICE (>= 1.47.1)
Imports:
    methods,
    BiocGenerics,
    MatrixGenerics,
    Biobase,
    S4Vectors (>= 0.23.18),
    IRanges,
    GenomeInfoDb,
    GenomicRanges (>= 1.17.16),
    SummarizedExperiment (>= 1.15.4),
    oligoClasses,
    DNAcopy,
    ff,
    foreach,
    matrixStats,
    lattice,
    data.table,
    grid,
    stats,
    utils
Suggests:
    human610quadv1bCrlmm (>= 1.0.3),
    BSgenome.Hsapiens.UCSC.hg18,
    BSgenome.Hsapiens.UCSC.hg19,
    RUnit
Collate:
    'help.R'
    'AllClasses.R'
    'AllGenerics.R'
    'coercion-methods.R'
    'datasets.R'
    'defunct.R'
    'functions.R'
    'generator-funs.R'
    'lattice-methods.R'
    'mad-methods.R'
    'methods-AnnotatedDataFrame.R'
    'methods-AssayData.R'
    'methods-FileViews.R'
    'methods-FilterParamMD.R'
    'methods-ILimit.R'
    'methods-MDRanges.R'
    'methods-MinDistExperiment.R'
    'methods-MinDistGRanges.R'
    'methods-MinDistParam.R'
    'methods-MinDistPosterior.R'
    'methods-ParentOffspring.R'
    'methods-ParentOffspringList.R'
    'methods-Pedigree.R'
    'methods-PennParam.R'
    'methods-ShallowSimpleList.R'
    'methods-SummarizedExperiment.R'
    'methods-TrioSet.R'
    'methods-TrioSetList.R'
    'methods-ff_array.R'
    'methods-grid.R'
    'methods-list.R'
    'methods-matrix.R'
    'segment2-methods.R'
    'utils.R'
    'zzz.R'
Enhances: snow, doSNOW
LazyLoad: yes
biocViews: Microarray, SNP, CopyNumberVariation
RoxygenNote: 7.1.1
Encoding: UTF-8