QCstats.plot {ORFik}R Documentation

Make plot of ORFik QCreport

Description

From post-alignment QC relative to annotation, make a plot for all samples. Will contain among others read lengths, reads overlapping leaders, cds, trailers, mRNA / rRNA etc.

Usage

QCstats.plot(stats, output.dir = NULL, plot.ext = ".pdf")

Arguments

stats

the experiment object or path to custom ORFik QC folder where a file called "STATS.csv" is located.

output.dir

NULL or character path, default: NULL, plot not saved to disc. If defined saves plot to that directory with the name "/STATS_plot.pdf".

plot.ext

character, default: ".pdf". Alternatives: ".png" or ".jpg".

Value

ggplot object of the the statistics data

Examples

df <- ORFik.template.experiment()[3,]
## First make QC report
# QCreport(df)
## Now you can get plot
# QCstats.plot(df)

[Package ORFik version 1.13.14 Index]