Package: scMerge
Type: Package
Title: scMerge: Merging multiple batches of scRNA-seq data
Version: 1.26.0
Authors@R: c(
    person("Yingxin", "Lin", email = "yingxin.lin@sydney.edu.au", role = c("aut", "cre")
    ),
    person("Kevin", "Wang", email = "kevin.wang@sydney.edu.au", role = c("aut")
    ),
    person("Sydney Bioinformatics and Biometrics Group", email = "bioinformatics@maths.usyd.edu.au", role = c("fnd"))
    )
Description: Like all gene expression data, single-cell data suffers
        from batch effects and other unwanted variations that makes
        accurate biological interpretations difficult. The scMerge
        method leverages factor analysis, stably expressed genes (SEGs)
        and (pseudo-) replicates to remove unwanted variations and
        merge multiple single-cell data. This package contains all the
        necessary functions in the scMerge pipeline, including the
        identification of SEGs, replication-identification methods, and
        merging of single-cell data.
License: GPL-3
Encoding: UTF-8
LazyData: false
Depends: R (>= 3.6.0)
Imports: BiocParallel, BiocSingular, BiocNeighbors, cluster,
        DelayedArray, DelayedMatrixStats, distr, igraph, M3Drop (>=
        1.9.4), proxyC, ruv, cvTools, scater, batchelor, scran,
        methods, S4Vectors (>= 0.23.19), SingleCellExperiment (>=
        1.7.3), SummarizedExperiment
RoxygenNote: 7.2.3
Suggests: BiocStyle, covr, HDF5Array, knitr, Matrix, rmarkdown, scales,
        proxy, testthat, badger
VignetteBuilder: knitr
biocViews: BatchEffect, GeneExpression, Normalization, RNASeq,
        Sequencing, SingleCell, Software, Transcriptomics
URL: https://github.com/SydneyBioX/scMerge
BugReports: https://github.com/SydneyBioX/scMerge/issues
Config/pak/sysreqs: libcairo2-dev libfontconfig1-dev libfreetype6-dev
        libfribidi-dev libglpk-dev make libharfbuzz-dev libicu-dev
        libjpeg-dev libpng-dev libtiff-dev libwebp-dev libxml2-dev
        zlib1g-dev
Repository: https://bioc-release.r-universe.dev
Date/Publication: 2025-10-29 14:51:54 UTC
RemoteUrl: https://github.com/bioc/scMerge
RemoteRef: RELEASE_3_22
RemoteSha: d9249c917868e832ef6ca8cf045597071a5746e2
NeedsCompilation: no
Packaged: 2026-02-22 08:03:37 UTC; root
Author: Yingxin Lin [aut, cre],
  Kevin Wang [aut],
  Sydney Bioinformatics and Biometrics Group [fnd]
Maintainer: Yingxin Lin <yingxin.lin@sydney.edu.au>
Built: R 4.5.2; ; 2026-02-22 08:05:54 UTC; windows
