Package: CNEr
Version: 1.42.0
Date: 2024-04-23
Title: CNE Detection and Visualization
Description: Large-scale identification and advanced visualization 
             of sets of conserved noncoding elements.
Author: Ge Tan <ge_tan@live.com>
Maintainer: Ge Tan <ge_tan@live.com>
Imports: Biostrings (>= 2.33.4), pwalign, DBI (>= 0.7), RSQLite (>=
        0.11.4), GenomeInfoDb (>= 1.1.3), GenomicRanges (>= 1.23.16),
        rtracklayer (>= 1.25.5), XVector (>= 0.5.4), GenomicAlignments
        (>= 1.1.9), methods, S4Vectors (>= 0.13.13), IRanges (>=
        2.5.27), readr (>= 0.2.2), BiocGenerics, tools, parallel,
        reshape2 (>= 1.4.1), ggplot2 (>= 2.1.0), poweRlaw (>= 0.60.3),
        annotate (>= 1.50.0), GO.db (>= 3.3.0), R.utils (>= 2.3.0),
        KEGGREST (>= 1.14.0)
Depends: R (>= 3.5.0)
Suggests: Gviz (>= 1.7.4), BiocStyle, knitr, rmarkdown, testthat,
        BSgenome.Drerio.UCSC.danRer10, BSgenome.Hsapiens.UCSC.hg38,
        TxDb.Drerio.UCSC.danRer10.refGene, BSgenome.Hsapiens.UCSC.hg19,
        BSgenome.Ggallus.UCSC.galGal3
LinkingTo: S4Vectors, IRanges, XVector
VignetteBuilder: knitr
License: GPL-2 | file LICENSE
License_restricts_use: yes
URL: https://github.com/ge11232002/CNEr
BugReports: https://github.com/ge11232002/CNEr/issues
Type: Package
biocViews: GeneRegulation, Visualization, DataImport
NeedsCompilation: yes
LazyData: no
Collate: GRangePairs-class.R GRangePairs-methods.R Axt-class.R
        CNE-class.R utils.R ceScan.R plot.R makeGeneDbFromUCSC.R
        IO-methods.R scoringMatrix.R subAxt-methods.R Axt-methods.R
        DB.R AssemblyStats.R GRB.R WholeGenomeAlignment.R Ancora.R
        CNE-methods.R GO.R KEGG.R
git_url: https://git.bioconductor.org/packages/CNEr
git_branch: RELEASE_3_20
git_last_commit: d83a1b6
git_last_commit_date: 2024-10-29
Repository: Bioconductor 3.20
Date/Publication: 2024-10-29
Packaged: 2024-10-30 01:50:42 UTC; biocbuild
Built: R 4.4.1; x86_64-w64-mingw32; 2024-10-30 15:38:45 UTC; windows
Archs: x64
