plotMID {HiResTEC}

plotMID.

Description

plotMID will plot a Mass Isotopomer Distribution (MID).

Usage

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

Arguments

mid

Matrix of corrected mass isotopomer distributions. Samples in columns, MID values in rows.

gr

Groups, a factor vector of length ncol(mid).

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

A plot.

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"))
lt <- paste0("M", 0:1)
rownames(mid) <- lt
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)
plotMID(mid = mid, gr = factor(colnames(mid)), stackedbars = TRUE, name = NULL)