Plot a Base Quality Boxplot by Position
plotQuals plots quality statistics by position.
Optionally, it adds a lowess curve through the qualities,
which is fit with data randomly drawn from the distribution of
qualities at each position. A histogram of the sequence length
distribution is plotted above the quality plot when
A legend is plotted on the bottom left if
TRUE (this location is used because this where the bases are
likely to be of highest quality, and thus not overlap the legend). The
grey lines indicate the range of the 10% and 90% quantiles, the
orange lines indicate the range of the 25% and 75% quartiles, the
blue point is the median, the green dash is the mean, and the purple
line is the lowess curve if
an S4 object of class
either ‘relative’ or ‘fixed’, which will scale the y axis to either the relative range (from the data) or absolute range of qualities.
a logical value indicating whether to fit a lowess curve through the quality plot.
a logical value indicating whether to add a histogram of the sequence length distribution above the quality plot.
a logical value indicating whether a legend is to be included.
Vince Buffalo <firstname.lastname@example.org>
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