Package: GenVisR
Title: Genomic Visualizations in R
Version: 1.36.0
Authors@R: c(person(given="Zachary", family="Skidmore", email="zlskidmore@gmail.com",
          role=c("aut", "cre")), person(given="Alex", family="Wagner", role="aut"),
          person(given="Robert", family="Lesurf", role="aut"), person(given="Katie",
          family="Campbell", role="aut"), person(given="Jason", family="Kunisaki",
          email="kunisakijh@gmail.com", role="aut"), person(given="Obi", family="Griffith",
          email="ogriffit@genome.wustl.edu", role="aut"), person(given="Malachi", family="Griffith",
          email="mgriffit@genome.wustl.edu", role="aut"))
Maintainer: Zachary Skidmore <zlskidmore@gmail.com>
Description: Produce highly customizable publication quality graphics for
    genomic data primarily at the cohort level.
Depends: R (>= 3.3.0), methods
Imports: AnnotationDbi, biomaRt (>= 2.45.8), BiocGenerics, Biostrings,
        DBI, GenomicFeatures, GenomicRanges (>= 1.25.4), ggplot2 (>=
        2.1.0), gridExtra (>= 2.0.0), gtable, gtools, IRanges (>=
        2.7.5), plyr (>= 1.8.3), reshape2, Rsamtools, scales, viridis,
        data.table, BSgenome, GenomeInfoDb, VariantAnnotation
License: GPL-3 + file LICENSE
BugReports: https://github.com/griffithlab/GenVisR/issues
biocViews: Infrastructure, DataRepresentation, Classification, DNASeq
LazyData: true
Suggests: BiocStyle, BSgenome.Hsapiens.UCSC.hg19, knitr, RMySQL,
        roxygen2, testthat, TxDb.Hsapiens.UCSC.hg19.knownGene,
        rmarkdown, vdiffr, formatR, TxDb.Hsapiens.UCSC.hg38.knownGene,
        BSgenome.Hsapiens.UCSC.hg38
VignetteBuilder: knitr
RoxygenNote: 7.2.3
Encoding: UTF-8
NeedsCompilation: no
Author: Zachary Skidmore [aut, cre], Alex Wagner [aut], Robert Lesurf [aut],
    Katie Campbell [aut], Jason Kunisaki [aut], Obi Griffith [aut], Malachi Griffith
    [aut]
Collate: 'AllGenerics.R' 'Clinical-class.R' 'GMS_Virtual-class.R'
        'GMS-class.R' 'GMS_v4-class.R' 'GenVisR.R' 'Lolliplot-class.R'
        'MutSpectra-class.R' 'MutationAnnotationFormat_Virtual-class.R'
        'MutationAnnotationFormat-class.R'
        'MutationAnnotationFormat_v1.0-class.R'
        'MutationAnnotationFormat_v2.0-class.R'
        'MutationAnnotationFormat_v2.1-class.R'
        'MutationAnnotationFormat_v2.2-class.R'
        'MutationAnnotationFormat_v2.3-class.R'
        'MutationAnnotationFormat_v2.4-class.R' 'Rainfall-class.R'
        'VEP_Virtual-class.R' 'VEP-class.R' 'VEP_v88-class.R'
        'Waterfall-class.R' 'cnFreq.R' 'cnFreq_buildMain.R'
        'cnFreq_disjoin.R' 'cnFreq_qual.R' 'cnSpec.R'
        'cnSpec_buildMain.R' 'cnSpec_qual.R' 'cnView.R'
        'cnView_buildMain.R' 'cnView_qual.R' 'compIdent.R'
        'compIdent_bamRcnt.R' 'compIdent_bamRcnt_qual.R'
        'compIdent_buildMain.R' 'compIdent_format.R' 'covBars.R'
        'covBars_buildMain.R' 'covBars_qual.R' 'deprecated.R'
        'genCov.R' 'genCov_alignPlot.R'
        'genCov_assign_ggplotGrob_height.R'
        'genCov_assign_ggplotGrob_width.R' 'genCov_buildCov.R'
        'genCov_buildTrack.R' 'genCov_extr_ggplotGrob_height.R'
        'genCov_extr_ggplotGrob_width.R' 'genCov_qual.R'
        'genCov_trackViz.R' 'geneViz.R' 'geneViz_Granges2dataframe.R'
        'geneViz_buildGene.R' 'geneViz_calcGC.R'
        'geneViz_cdsFromTXID.R' 'geneViz_extrCDS.R' 'geneViz_extrUTR.R'
        'geneViz_formatUTR.R' 'geneViz_formatcds.R'
        'geneViz_mapCoordSpace.R' 'geneViz_mapCovCoordSpace.R'
        'geneViz_mergeRegions.R' 'geneViz_mergeTypeRegions.R'
        'geneViz_mergeTypes.R' 'ideoView.R' 'ideoView_buildMain.R'
        'ideoView_formatCytobands.R' 'ideoView_qual.R' 'lohSpec.R'
        'lohSpec_buildMain.R' 'lohSpec_fileGlob.R' 'lohSpec_lohCalc.R'
        'lohSpec_qual.R' 'lohSpec_slidingWindow.R' 'lohSpec_stepCalc.R'
        'lohSpec_tileCalc.R' 'lohSpec_tilePosition.R'
        'lohSpec_tileWindow.R' 'lohSpec_windowPosition.R' 'lohView.R'
        'lohView_buildMain.R' 'lohView_qual.R' 'multi_align.R'
        'multi_buildClin.R' 'multi_chrBound.R' 'multi_cytobandRet.R'
        'multi_selectOut.R' 'multi_subsetChr.R'
git_url: https://git.bioconductor.org/packages/GenVisR
git_branch: RELEASE_3_19
git_last_commit: c0768ff
git_last_commit_date: 2024-04-30
Repository: Bioconductor 3.19
Date/Publication: 2024-05-01
Packaged: 2024-05-01 23:10:55 UTC; biocbuild
Built: R 4.4.0; ; 2024-05-02 12:52:55 UTC; windows
