Make mean-vs-SD plot

Construct a plot of the mean abundance (x) vs the standard deviation of the abundance for each feature.

makeMeanSDPlot(sce, assayName, xlab = "Mean", ylab = "SD")

Arguments

sce

A SummarizedExperiment object (or a derivative).

assayName

Character scalar, the name of the assay of sce to use for the plots.

xlab, ylab

Character scalars, the labels to use for the x/y-axis, respectively.

Value

A ggplot object.

Author

Charlotte Soneson

Examples

mqFile <- system.file("extdata", "mq_example", "1356_proteinGroups.txt",
                      package = "einprot")
out <- importExperiment(inFile = mqFile, iColPattern = "^iBAQ\\.")
makeMeanSDPlot(out$sce, assayName = "iBAQ", xlab = "Mean", ylab = "SD")
#> `geom_smooth()` using method = 'gam' and formula = 'y ~ s(x, bs = "cs")'
#> Warning: Removed 72 rows containing non-finite outside the scale range
#> (`stat_smooth()`).
#> Warning: Removed 72 rows containing missing values or values outside the scale range
#> (`geom_point()`).