Package: GenomicOZone
Type: Package
Title: Delineate outstanding genomic zones of differential gene
        activity
biocViews: Software, GeneExpression, Transcription,
        DifferentialExpression, FunctionalPrediction, GeneRegulation,
        BiomedicalInformatics, CellBiology, FunctionalGenomics,
        Genetics, SystemsBiology, Transcriptomics, Clustering,
        Regression, RNASeq, Annotation, Visualization, Sequencing,
        Coverage, DifferentialMethylation, GenomicVariation,
        StructuralVariation
Version: 1.2.0
Author: Hua Zhong, Mingzhou Song
Maintainer: Hua Zhong<zh9118@gmail.com>, Mingzhou Song <joemsong@cs.nmsu.edu>
Description: The package clusters gene activity along chromosome into zones, detects differential zones as outstanding, and visualizes maps of outstanding zones across the genome. The method guarantees cluster optimality, linear runtime to sample size, and reproducibility. It enables new characterization of effects due to genome reorganization, structural variation, and epigenome alteration. 
License: LGPL (>=3)
Encoding: UTF-8
NeedsCompilation: no
Depends: R (>= 3.6), Ckmeans.1d.dp (>= 4.3.0), GenomicRanges, biomaRt,
        ggplot2
Suggests: readxl, GEOquery, knitr, rmarkdown
Imports: grDevices, stats, utils, plyr, gridExtra, sjstats, parallel,
        ggbio, S4Vectors, IRanges, GenomeInfoDb, Rdpack
RdMacros: Rdpack
LazyData: true
VignetteBuilder: knitr
RoxygenNote: 6.1.1
git_url: https://git.bioconductor.org/packages/GenomicOZone
git_branch: RELEASE_3_11
git_last_commit: bd36fad
git_last_commit_date: 2020-04-27
Date/Publication: 2020-04-27
Packaged: 2020-04-28 07:08:48 UTC; biocbuild
Built: R 4.0.0; ; 2020-04-28 18:12:31 UTC; windows
