DESCRIPTION

Package: scMerge
Type: Package
Title: scMerge: Merging multiple batches of scRNA-seq data
Version: 1.19.0
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