Package: simpleSingleCell
Title: A step-by-step workflow for low-level analysis of single-cell
        RNA-seq data with Bioconductor
Version: 1.8.0
Date: 2020-04-27
Authors@R: c(person(role=c("aut", "cre"), "Aaron", "Lun", email = "infinite.monkeys.with.keyboards@gmail.com"),
        person(role="aut", "Davis", "McCarthy"),
        person(role="aut", "John", "Marioni"))
Description: This workflow implements a low-level analysis pipeline for
        scRNA-seq data using scran, scater and other Bioconductor packages. It
        describes how to perform quality control on the libraries, normalization of
        cell-specific biases, basic data exploration, cell cycle phase identification,
        doublet detection and batch correction. Procedures to detect highly
        variable genes, significantly correlated genes and subpopulation-specific
        marker genes are also shown. These analyses are demonstrated on publicly
        available scRNA-seq data sets from a variety of protocols including 
        SMART-seq2 and 10X Genomics. 
Imports: BiocStyle, callr, rmarkdown
Suggests: knitr, readxl, R.utils, Matrix, SingleCellExperiment, scater,
        scran, DropletUtils, org.Hs.eg.db, org.Mm.eg.db,
        EnsDb.Hsapiens.v86, TxDb.Mmusculus.UCSC.mm10.ensGene,
        dynamicTreeCut, cluster, igraph, Rtsne, pheatmap, limma, edgeR,
        BiocParallel, BiocFileCache, BiocNeighbors, BiocSingular,
        batchelor, scRNAseq, TENxBrainData
License: Artistic-2.0
Encoding: UTF-8
LazyData: true
VignetteBuilder: knitr
biocViews: ImmunoOncologyWorkflow, Workflow, SingleCellWorkflow
NeedsCompilation: no
URL: https://www.bioconductor.org/help/workflows/simpleSingleCell/
RoxygenNote: 6.1.1
git_url: https://git.bioconductor.org/packages/simpleSingleCell
git_branch: RELEASE_3_9
git_last_commit: 0a95c65
git_last_commit_date: 2019-05-02
Date/Publication: 2019-05-03
Packaged: 2019-05-03 16:59:54 UTC; biocbuild
Author: Aaron Lun [aut, cre],
  Davis McCarthy [aut],
  John Marioni [aut]
Maintainer: Aaron Lun <infinite.monkeys.with.keyboards@gmail.com>
