Description Usage Arguments Examples
plotSummaryNumbers plots properties from Summary Numbers (SN) part of output returned
by readSamtoolsStats
. This includes number of mapped reads, mapped and paired reads,
and alignment rate (see details for compleate list). Function also provides means to plot some
properties that are not explicitly available in the output.
1 | plotSummaryNumbers(data, samples, what = "raw total sequences")
|
data |
Summary Numbers (SN) part of output returned by |
samples |
vector of samples names from data that are required to be plotted. |
what |
string describing property to plot. Valid choices includes all properties from
Summary Numbers (SN) part of output returned by |
1 2 | SN <- readSamtoolsStats(system.file('extdata', 'sample1', package = 'sumsamstats'))
plotSummaryNumbers(data = SN, samples = c('sample1'), what = 'raw total sequences')
|
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