Package: anglemania
URL: https://github.com/BIMSBbioinfo/anglemania/
Title: Feature Extraction for scRNA-seq Dataset Integration
Version: 1.1.0
Description: anglemania extracts genes from multi-batch scRNA-seq experiments for downstream dataset integration. It shows improvement over the conventional usage of highly-variable genes for many integration tasks. We leverage gene-gene correlations that are stable across batches to identify biologically informative genes which are less affected by batch effects. Currently, its main use is for single-cell RNA-seq dataset integration, but it can be applied for other multi-batch downstream analyses such as NMF.
Authors@R: c(
    person("Aaron", "Kollotzek", email = "aaron.kollotzek@mdc-berlin.de", role = c("aut", "cre"),
           comment = c(ORCID = "0009-0009-7142-4015")),
    person("Vedran", "Franke", email = "vedran.franke@mdc-berlin.de", role = c("aut"),
           comment = c(ORCID = "0000-0003-3606-6792")),
    person("Artem", "Baranovskii", email = "artem.baranowsky@gmail.com", role = c("aut")),
    person("Altuna", "Akalin", email = "altuna.akalin@mdc-berlin.de", role = "aut"),
    person("SFB1588", role = "fnd", comment = "Funded by the DFG – Deutsche Forschungsgemeinschaft")
  )
License: GPL (>= 3)
Encoding: UTF-8
Roxygen: list(markdown = TRUE)
RoxygenNote: 7.3.2
LinkingTo: 
    Rcpp, rmio, bigstatsr
Depends:
    R (>= 4.5.0)
Imports:
    bigparallelr,
    bigstatsr,
    checkmate,
    digest,
    dplyr,
    Matrix,
    pbapply,
    S4Vectors,
    SingleCellExperiment,
    stats,
    SummarizedExperiment,
    tidyr,
    withr
Suggests:
    batchelor,
    BiocStyle,
    bluster,
    knitr,
    magick,
    matrixStats,
    patchwork,
    RcppArmadillo,
    rmarkdown,
    scater,
    scran,
    Seurat,
    splatter,
    testthat (>= 3.0.0),
    UpSetR
VignetteBuilder: knitr
biocViews: SingleCell, BatchEffect, MultipleComparison, FeatureExtraction
BiocType: Software
Config/testthat/edition: 3
BugReports: https://github.com/BIMSBbioinfo/anglemania/issues
git_url: https://git.bioconductor.org/packages/anglemania
git_branch: devel
git_last_commit: fee34a3
git_last_commit_date: 2025-10-29
Repository: Bioconductor 3.23
