Package: VanillaICE
Version: 1.73.0
Title: A Hidden Markov Model for high throughput genotyping arrays
Authors@R: person("Robert", "Scharpf", email="rscharpf@jhu.edu", role=c("aut", "cre"))
Description: Hidden Markov Models for characterizing chromosomal alteration in high throughput SNP arrays.
Date: 2021-11-21
Depends:
    R (>= 3.5.0),
    BiocGenerics (>= 0.13.6),
    GenomicRanges (>= 1.27.6),
    SummarizedExperiment (>= 1.5.3)
Imports:
    MatrixGenerics,
    Biobase,
    S4Vectors (>= 0.23.18),
    IRanges (>= 1.14.0),
    oligoClasses (>= 1.31.1),
    foreach,
    matrixStats,
    data.table,
    grid,
    lattice,
    methods,
    GenomeInfoDb (>= 1.11.4),
    crlmm,
    tools,
    stats,
    utils,
    BSgenome.Hsapiens.UCSC.hg18
Suggests:
    RUnit,
    human610quadv1bCrlmm
Collate:
    'AllClasses.R'
    'AllGenerics.R'
    'datasets.R'
    'functions.R'
    'help.R'
    'hmm-methods.R'
    'methods-ArrayViews.R'
    'methods-CopyNumScanParams.R'
    'methods-EmissionParam.R'
    'methods-FilterParam.R'
    'methods-HMM.R'
    'methods-HMMList.R'
    'methods-HmmGRanges.R'
    'methods-HmmParam.R'
    'methods-HmmTrellisParam.R'
    'methods-IdiogramParams.R'
    'methods-LogLik.R'
    'methods-SnpArrayExperiment.R'
    'methods-SnpDataFrame.R'
    'methods-TransitionParam.R'
    'methods-Viterbi.R'
    'updates.R'
    'zzz.R'
Enhances: doMC, doMPI, doSNOW, doParallel, doRedis
License: LGPL-2
LazyLoad: yes
biocViews: CopyNumberVariation
Roxygen:
RoxygenNote: 7.1.1
Encoding: UTF-8
git_url: https://git.bioconductor.org/packages/VanillaICE
git_branch: devel
git_last_commit: 22bb99f
git_last_commit_date: 2025-10-29
Repository: Bioconductor 3.23
