DESCRIPTION

Package: Sierra
Type: Package
Title: PolyA counting and differential transcript usage analysis for scRNA-seq data
Version: 0.99.24
Authors@R: c(person("Ralph", "Patrick", role = c("aut", "ctb"), email = "r.patrick@victorchang.edu.au"),
             person("David", "Humphreys", role = c("aut", "cre"), email = "d.humphreys@victorchang.edu.au"),
             person("Kitty", "Lo", role = c("aut", "ctb"), email = "kitty.lo@gmail.com"))
Description: Sierra is a pipeline for detecting differential transcript usage from barcoded polyA-enriched scRNA-seq experiments
License: file LICENSE
Encoding: UTF-8
LazyData: true
biocViews: Software,Transcriptomics, SingleCell, RNASeq, GeneExpression, Sequencing, Visualization, StatisticalMethod, TranscriptomeVariant 
Imports:
    GenomicRanges,
    GenomicAlignments,
    reshape2,
    S4Vectors,
    plyr,
    dplyr,
    utils,
    foreach,
    parallel,
    doParallel,
    Matrix,
    MLmetrics,
    progress,
    ggplot2,
    cowplot,
    Gviz,
    BiocStyle,
    SingleCellExperiment,
    DEXSeq,
    flock,
    magrittr,
    R.utils,
    BSgenome, BiocGenerics, BiocParallel, Biostrings, GenomeInfoDb,
    GenomicFeatures, IRanges, Rsamtools, SummarizedExperiment,
    data.table, genefilter, rtracklayer, scales
RoxygenNote: 7.1.1
Suggests: 
    Seurat,
    knitr,
    gggenes,
    rmarkdown,
    BSgenome.Mmusculus.UCSC.mm10
VignetteBuilder: knitr