plotMID: plotMID.

In HiResTEC: Non-Targeted Fluxomics on High-Resolution Mass-Spectrometry Data

plotMID.

Description

plotMID will plot a Mass Isotopomer Distribution (MID) as calculated by CorMID.

Usage

plotMID(
  mid = NULL,
  gr = NULL,
  name = "unknown",
  contr = NULL,
  stackedbars = FALSE,
  subplot_ylim = 100,
  ...
)

Arguments

mid	Matrix of measured ion intensities corrected using CorMID.
gr	Groups, a factor.
name	Name of metabolite.
contr	Contrasts. Not yet clear if useful.
stackedbars	Alternative plotting layout using stacked bar plot.
subplot_ylim	Calculate ylim individually per subplot if 0, show full range in all subplots if 100 and limit to the minimal specified number otherwise.
...	Further arguments to 'boxplot' or 'barplot' (depending on 'stackedbars').

Details

Not yet.

Value

NULL.

Examples

mid <- matrix(c(seq(0, 0.3, 0.1), seq(1, 0.7, -0.1)), byrow = TRUE, nrow = 2)
gr <- gl(2, 2, labels = letters[1:2])
plotMID(mid = mid, gr = gr, name = "Metabolite X")
plotMID(mid = mid, gr = gr, stackedbars = TRUE, las = 1, xlab = "MID", legend.text = c("x", "y"))
rownames(mid) <- paste0("M", 0:1)
lt <- paste0("M", 0:1)
plotMID(mid = mid, gr = gr, stackedbars = TRUE, las = 1, xlab = "MID", legend.text = lt)
plotMID(mid = mid[, 2, drop = FALSE], stackedbars = TRUE, col = c(3, 4))
colnames(mid) <- paste0("S", 1:4)
gr2 <- gl(n = 1, k = 1, labels = "bla")
plotMID(mid = mid[, 2, drop = FALSE], gr = gr2, stackedbars = TRUE, name = NULL)

HiResTEC documentation built on March 7, 2023, 5:47 p.m.