Comprehensive reporting of QC metrics: computational doublet annotation using bcds

In singleCellTK: Comprehensive and Interactive Analysis of Single Cell RNA-Seq Data

require(singleCellTK)
require(umap)
require(ggplot2)

  plotBcds<- suppressWarnings(plotBcdsResults(sce.qc, reducedDimName = "UMAP"))
    i="Bcds"
    cat(paste0('# ', i, ' {.tabset} \n\n'))
    cat(paste0('## Scatter Score \n\n'))
    plotBcds$scatter_doubletScore

    cat(paste0('## Scatter Call \n\n'))
    plotBcds$scatter_doubletCall

    cat(paste0('## Density Score \n\n'))
    plotBcds$density_doubletScore

    cat(paste0('## Violin Score \n\n'))
    plotBcds$violin_doubletScore

    cat(paste0('## Session info \n\n'))
    sce.qc@metadata$runBcds

description_BcdsResults<- descriptionBCDS()

{.unlisted .unnumbered .toc-ignore}

r description_BcdsResults

singleCellTK documentation built on Nov. 8, 2020, 5:21 p.m.