barplotSamplesMeasuredMissing: Barplot of number of measured/missing features of samples

In tnaake/MatrixQCvis: Shiny-based interactive data-quality exploration for omics data

Barplot of number of measured/missing features of samples

Description

barplotSamplesMeasuredMissing plots the number of measured/missing features of samples as a barplot. The function will take as input the returned tbl of samplesMeasuredMissing.

Usage

barplotSamplesMeasuredMissing(tbl, measured = TRUE)

Arguments

tbl	tbl object
measured	logical, should the number of measured or missing values be plotted

Value

gg object from ggplot2

Examples

## create se
a <- matrix(seq_len(100), nrow = 10, ncol = 10, 
            dimnames = list(seq_len(10), paste("sample", seq_len(10))))
a[c(1, 5, 8), seq_len(5)] <- NA
set.seed(1)
a <- a + rnorm(100)
cD <- data.frame(name = colnames(a), type = c(rep("1", 5), rep("2", 5)))
rD <- data.frame(spectra = rownames(a))
se <- SummarizedExperiment::SummarizedExperiment(assay = a, 
    rowData = rD, colData = cD)

## create the data.frame with information on number of measured/missing
## values
tbl <- samplesMeasuredMissing(se) 

## plot number of measured values
barplotSamplesMeasuredMissing(tbl, measured = TRUE)

## plot number of missing values
barplotSamplesMeasuredMissing(tbl, measured = FALSE)

tnaake/MatrixQCvis documentation built on Nov. 4, 2024, 7:42 a.m.