DESCRIPTION

Package: batchelor
Version: 1.23.0
Date: 2024-07-03
Title: Single-Cell Batch Correction Methods
Authors@R: c(person("Aaron", "Lun", role = c("aut", "cre"), email = "infinite.monkeys.with.keyboards@gmail.com"),
    person("Laleh", "Haghverdi", role="ctb"))
Depends: SingleCellExperiment
Imports: 
    SummarizedExperiment,
    S4Vectors,
    BiocGenerics,
    Rcpp,
    stats,
    methods,
    utils,
    igraph,
    BiocNeighbors,
    BiocSingular,
    Matrix,
    SparseArray,
    DelayedArray (>= 0.31.5),
    DelayedMatrixStats,
    BiocParallel,
    scuttle,
    ResidualMatrix,
    ScaledMatrix,
    beachmat
Suggests: 
    testthat,
    BiocStyle,
    knitr,
    rmarkdown,
    scran,
    scater,
    bluster,
    scRNAseq
biocViews: 
    Sequencing,
    RNASeq,
    Software,
    GeneExpression,
    Transcriptomics,
    SingleCell,
    BatchEffect,
    Normalization
LinkingTo: 
    Rcpp
Description: 
    Implements a variety of methods for batch correction of single-cell (RNA sequencing) data. 
    This includes methods based on detecting mutually nearest neighbors,
    as well as several efficient variants of linear regression of the log-expression values.
    Functions are also provided to perform global rescaling to remove differences in depth between batches,
    and to perform a principal components analysis that is robust to differences in the numbers of cells across batches.
License: GPL-3
NeedsCompilation: yes
VignetteBuilder: knitr
SystemRequirements: C++11
RoxygenNote: 7.3.2