Package: AllelicImbalance
Type: Package
Title: Investigates Allele Specific Expression
Version: 1.14.0
Date: 2016-05-12
Encoding: UTF-8
Author: Jesper R Gadin, Lasse Folkersen
Maintainer: Jesper R Gadin <j.r.gadin@gmail.com>
Description: Provides a framework for allelic specific expression
    investigation using RNA-seq data.
License: GPL-3
URL: https://github.com/pappewaio/AllelicImbalance
BugReports: https://github.com/pappewaio/AllelicImbalance/issues
Suggests: testthat, org.Hs.eg.db, TxDb.Hsapiens.UCSC.hg19.knownGene,
        SNPlocs.Hsapiens.dbSNP144.GRCh37, BiocStyle, knitr, rmarkdown
Depends: R (>= 3.2.0), grid, GenomicRanges, SummarizedExperiment (>=
        0.2.0), GenomicAlignments
Imports: methods, BiocGenerics, AnnotationDbi, BSgenome,
        VariantAnnotation, Biostrings, S4Vectors (>= 0.9.25), IRanges,
        Rsamtools, GenomicFeatures, Gviz, lattice, latticeExtra,
        gridExtra, seqinr, GenomeInfoDb, nlme
LazyData: TRUE
biocViews: Genetics, Infrastructure, Sequencing
VignetteBuilder: knitr
Collate: 'AllelicImbalance-package.R' 'initialize-methods.R'
        'ASEset-class.R' 'DetectedAI-class.R' 'GlobalAnalysis-class.R'
        'barplot-methods.R' 'locationplot-methods.R'
        'GvizTrack-methods.R' 'LinkVariantAlmlof-class.R'
        'RegionSummary-class.R' 'RiskVariant-class.R'
        'auxillary-functions-annotation.R'
        'auxillary-functions-visuals.R'
        'auxillary-methods-annotation.R'
        'auxillary-methods-summaries.R' 'auxillary-methods.R'
        'chisq.test-methods.R' 'binom.test-methods.R'
        'boxplot-methods.R' 'deprecations.R' 'detect-methods.R'
        'filter-methods.R' 'histplot-methods.R' 'inference-methods.R'
        'linkage-methods.R' 'list-methods.R' 'mapbias-methods.R'
        'plot-methods.R' 'show-methods.R' 'simulation-methods.R'
        'summary-methods.R' 'utils.R'
RoxygenNote: 6.0.1
NeedsCompilation: no
Packaged: 2017-04-25 00:18:00 UTC; biocbuild
Built: R 3.4.0; ; 2017-04-25 02:12:54 UTC; windows
