knitr::opts_chunk$set( collapse = TRUE, comment = "#>" ) library(nanopoRe) library(knitr) library(emojifont) init() setOutputFormat("file")
seqsumFile <- system.file("extdata", "sequencing_summary.txt.bz2", package = "nanopoRe") barcodeFile <- system.file("extdata", "barcoding_summary.txt.bz2", package = "nanopoRe") importSequencingSummary(seqsumFile) SequencingSummaryBarcodeMerge(barcodeFile=barcodeFile)
include_graphics( SequenceSummaryExecutiveSummary() )
include_graphics( SequencingSummaryPassGauge() )
include_graphics( SequencingSummaryChannelActivity(showcount=TRUE) )
include_graphics( SequenceSummaryBasicInfoPlot() )
include_graphics( SequencingSummaryWeightedReadLength() )
include_graphics( SequencingSummaryReadLengthHistogram() )
include_graphics( SequencingSummaryReadQualityHistogram() )
include_graphics( SequencingSummaryReadLengthQualityDensity(binFilter=3) )
include_graphics( SequencingSummaryTemporalThroughput() )
include_graphics( SequencingSummaryCumulativeBases() )
include_graphics( SequencingSummaryCumulativeReads() )
include_graphics( SequencingSummarySpeedPlot() )
include_graphics( SequencingSummaryActiveChannelPlot() )
if (SequencingSummaryHasBarcodeInfo()) { include_graphics( SequenceSummaryBarcodeInfoGraphic() ) }
if (SequencingSummaryHasBarcodeInfo()) { SequenceSummaryBarcodeTable() }
if (SequencingSummaryHasBarcodeInfo()) { include_graphics( SequenceSummaryBarcodeHistogram() ) }
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