Package: scMerge
Type: Package
Title: scMerge: Merging multiple batches of scRNA-seq data
Version: 1.4.0
Authors@R: c(
    person("Kevin", "Wang", email = "kevin.wang@sydney.edu.au", role = c("aut", "cre")
    ),
    person("Yingxin", "Lin", email = "yingxin.lin@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 RNA-seq (scRNA-Seq) 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 scRNA-Seq data. 
    This package contains all the necessary functions in the 
    scMerge pipeline, including the identification of SEGs, replication-identification methods, and 
    merging of scRNA-Seq data. 
License: GPL-3
Encoding: UTF-8
LazyData: false
Depends: R (>= 3.6.0)
Imports: BiocParallel, BiocSingular, cluster, DelayedArray,
        DelayedMatrixStats, distr, dplyr, igraph, M3Drop (>= 1.9.4),
        parallel, pdist, proxy, Rcpp (>= 0.12.18), RcppEigen (>=
        0.3.3.4.0), ruv, S4Vectors (>= 0.23.19), SingleCellExperiment
        (>= 1.7.3), SummarizedExperiment
LinkingTo: Rcpp (>= 0.12.18), RcppEigen, testthat
RoxygenNote: 7.1.0
Suggests: BiocStyle, covr, HDF5Array, knitr, Matrix, rmarkdown, scales,
        scater, 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
git_url: https://git.bioconductor.org/packages/scMerge
git_branch: RELEASE_3_11
git_last_commit: 5bc7a77
git_last_commit_date: 2020-04-27
Date/Publication: 2020-04-27
NeedsCompilation: yes
Packaged: 2020-04-28 07:00:29 UTC; biocbuild
Author: Kevin Wang [aut, cre],
  Yingxin Lin [aut],
  Sydney Bioinformatics and Biometrics Group [fnd]
Maintainer: Kevin Wang <kevin.wang@sydney.edu.au>
Built: R 4.0.0; i386-w64-mingw32; 2020-04-28 18:09:29 UTC; windows
Archs: i386, x64
