plotBy2Groups: Separate and plot data by 2 groups

In wrGraph: Graphics in the Context of Analyzing High-Throughput Data

Separate and plot data by 2 groups

Description

Plot series of data as membership of 2 different grouping vectors (eg by grp=patient and grp2=age-group).

Usage

plotBy2Groups(
  dat,
  grp,
  grp2 = NULL,
  col = NULL,
  pch = NULL,
  tit = NULL,
  cex = 2,
  lwd = 0.5,
  lty = 2,
  yLab = NULL,
  cexLab = NULL,
  sepLines = FALSE,
  silent = FALSE,
  debug = FALSE,
  callFrom = NULL
)

Arguments

dat	(numeric) main data (may contain NA)
grp	(character or factor) grouping of columns of 'dat', eg replicate association
grp2	(character or factor) aadditional/secondary grouping of columns of 'dat'
col	(character or integer) use custom colors, see also par
pch	(integer) symbol to mark group-center (see also par)
tit	(character) custom title
cex	(numeric) expansion factor for text (see also par)
lwd	(integer) line-width (see also par)
lty	(integer) line-type (see also par)
yLab	(character) custom y-axis label
cexLab	(numeric) expansion factor for labels: 1st value for main groups (grp, eg genotypes), 2nd for detailed text (grp2, eg animal IDs) (see also par)
sepLines	(logical) optional drawing of horizontal lines aiming to separate groups (in analogy to support vectors)
silent	(logical) suppress messages
debug	(logical) additional messages for debugging
callFrom	(character) allow easier tracking of messages produced

Value

list with $annot, $abund for initial/raw abundance values and $quant with final normalized quantitations, or returns data.frame with annot and quant if separateAnnot=FALSE

See Also

read.table, normalizeThis)

Examples

set.seed(2020); rand1 <- round(runif(12),2) +rep(1:3,each=4)
plotBy2Groups(rand1, gl(2,6,labels=LETTERS[5:6]), gl(4,3,labels=letters[1:4]))
 

wrGraph documentation built on Oct. 20, 2023, 5:08 p.m.