Package: AnnotatedBCGEData
Title: 100+ Curated Breast Cancer Gene Expression Data sets
Version: 0.99.13
Date: 2025-10-16
Authors@R: 
    c(person("Heidi", "Steadman", 
        email = "hstead05@byu.edu", 
        role = "aut"), 
    person("Shu-Fei", "Lo", 
        email = "shufeilo@byu.edu", 
        role = "aut"),
    person("Stephen", "Piccolo", 
        email = "stephen_piccolo@byu.edu", 
        role = c("cre", "aut"),
        comment = c(ORCID = "0000-0003-2001-5640")),
    person("BYU", "College Undergraduate Research Award",
        role = "fnd")
    )
Description: AnnotatedBCGEData is an R Bioconductor package that provides access 
    to more than 100 gene-expression datasets generated using microarray and RNA-
    sequencing technologies. We collected these datsets from public repositories, 
    including Gene Expression Omnibus, ArrayExpress, and The Cancer Genome Atlas.
    Where feasible, we obtained and reprocessed the raw data using computational 
    pipelines and annotations that were standardized and more updated than those 
    used to process the data originally. Additionally, we annotated the sample 
    metadata using oncology terms from the National Cancer Institute Thesaurus. 
    This was necessary because different data submitters used different 
    terminology to describe breast-cancer patients and samples. Mapping the 
    metadata to ontology terms makes it possible for users to search the data 
    using these standardized terms.
License: CC0
URL: https://github.com/srp33/AnnotatedBCGEData
BugReports: https://github.com/srp33/AnnotatedBCGEData//issues
biocViews: ExperimentData, CancerData, ExpressionData,
        Homo_sapiens_Data, GEO, ArrayExpress, Tissue, MicroarrayData,
        SequencingData, BreastCancerData, Genome, TissueMicroarrayData
Encoding: UTF-8
Roxygen: list(markdown=TRUE)
Suggests: BiocStyle, knitr, rmarkdown, sessioninfo, ggplot2, testthat
        (>= 3.0.0)
VignetteBuilder: knitr
Depends: R (>= 4.6)
Imports: SummarizedExperiment, stringr, readr, dplyr, tibble, tidyr,
        zen4R, BiocFileCache, cli, rlang, readxl
Config/testthat/edition: 3
Config/roxygen2/version: 8.1.0
git_url: https://git.bioconductor.org/packages/AnnotatedBCGEData
git_branch: devel
git_last_commit: 3f5c4df
git_last_commit_date: 2026-10-22
Repository: Bioconductor 3.24
Date/Publication: 2026-10-27
NeedsCompilation: no
Packaged: 2026-10-27 15:07:05 UTC; biocbuild
Author: Heidi Steadman [aut],
  Shu-Fei Lo [aut],
  Stephen Piccolo [cre, aut] (ORCID:
    <https://orcid.org/0000-0003-2001-5640>),
  BYU College Undergraduate Research Award [fnd]
Maintainer: Stephen Piccolo <stephen_piccolo@byu.edu>
