Package: OrnTx
Title: Expression Atlas for Ornamental Plant Transcriptomics
Version: 0.99.2
Authors@R: c(
    person("Lashika", "Meena",
           email = "lashikakarnal@gmail.com",
           role = c("aut", "cre"),
           comment = c(ORCID = "0009-0003-0770-0261")))
Description: The first R/Bioconductor package for ornamental plant
        transcriptomics. Provides a complete RNA-seq pipeline
        (download, QC, alignment, import), a curated Rosa chinensis
        expression atlas, a 64-gene floriculture trait database
        anchored to Arabidopsis orthologs, multi-tool import support
        (STAR, featureCounts, HTSeq, Salmon), auto-detection of three
        Rosa chinensis gene ID formats, and cross-species validation on
        Tagetes erecta.
License: GPL-3
URL: https://github.com/lashikakarnal/OrnTx
BugReports: https://github.com/lashikakarnal/OrnTx/issues
Encoding: UTF-8
Roxygen: list(markdown = TRUE)
RoxygenNote: 7.3.3
Depends: R (>= 4.4.0)
Imports: SummarizedExperiment, S4Vectors, ggplot2, tidyr, stats, utils
Suggests: DESeq2, edgeR, dplyr, methods, testthat (>= 3.0.0), knitr,
        rmarkdown, BiocStyle
VignetteBuilder: knitr
biocViews: RNASeq, GeneExpression, DifferentialExpression,
        Transcriptomics, Visualization, DataImport, Annotation,
        Alignment
LazyData: false
Config/pak/sysreqs: libicu-dev zlib1g-dev
Repository: https://biocstaging.r-universe.dev
Date/Publication: 2026-10-15 07:00:08 UTC
RemoteUrl: https://github.com/BiocStaging/OrnTx
RemoteRef: HEAD
RemoteSha: 34ba0effa903e6d2d931389fe5156caa4aeab942
NeedsCompilation: no
Packaged: 2026-10-15 11:49:01 UTC; root
Author: Lashika Meena [aut, cre] (ORCID:
    <https://orcid.org/0009-0003-0770-0261>)
Maintainer: Lashika Meena <lashikakarnal@gmail.com>