Package: geneClusterPattern
Type: Package
Title: Plot conserved gene pattern across multiple species
Version: 0.99.2
Authors@R: c(person(given="Jianhong", family="Ou", email="jou@morgridge.org", 
        role=c("aut", "cre"), comment=c(ORCID="0000-0002-8652-2488")),
        person(given='Kenneth', family='Poss', email='kposs@morgridge.org',
        role=c('aut', 'fnd')))
Description: An R package for constructing and comparing ortholog gene
        patterns around a focal gene across species. It enables the
        exploration of conserved gene neighborhoods (synteny) by
        organizing orthologous genes within a defined genomic window
        and aligning their relative positions across multiple genomes.
        It can retrieve homologous gene directly from Ensembl or it can
        incorporate user-provided ortholog group assignments.
License: MIT + file LICENSE
biocViews: Visualization
VignetteBuilder: knitr
RoxygenNote: 8.0.0
Encoding: UTF-8
URL: https://github.com/jianhong/geneClusterPattern
BugReports: https://github.com/jianhong/geneClusterPattern/issues
Depends: R (>= 4.5.0)
Imports: BiocGenerics, Biostrings, pwalign, GenomeInfoDb,
        GenomicRanges, grDevices, IRanges, RANN, biomaRt, grid,
        methods, Seqinfo, stats, trackViewer, utils
Suggests: org.Dr.eg.db, BiocStyle, knitr, rmarkdown, testthat,
        S4Vectors
Config/pak/sysreqs: cmake make libbz2-dev libicu-dev liblzma-dev
        libpng-dev libuv1-dev libxml2-dev libssl-dev xz-utils
        zlib1g-dev
Repository: https://bioc.r-universe.dev
Date/Publication: 2026-09-15 19:34:15 UTC
RemoteUrl: https://github.com/bioc/geneClusterPattern
RemoteRef: HEAD
RemoteSha: a879182eb1279b4e7e37e7da4530c461bd4a0274
NeedsCompilation: no
Packaged: 2026-10-18 06:28:18 UTC; root
Author: Jianhong Ou [aut, cre] (ORCID: <https://orcid.org/0000-0002-8652-2488>),
  Kenneth Poss [aut, fnd]
Maintainer: Jianhong Ou <jou@morgridge.org>