DepLogo (version 1.0)

deprects: Rectangles of averaged colors

Description

Plot a representation of a set of sequences by rectangles of (scaled) averaged color values of the symbols at each position.

Usage

deprects(part, yoff, ic.scale = TRUE)

Arguments

part

the set of sequences as DLData object

yoff

the offset in y-direction within the current plot

ic.scale

if TRUE, alpha values of colors will be assigned based on "information content" of the distribution at each position

Value

the vertical (y) offset after this plot

Details

This function is a low-level plotting function (using rect, internally).

Examples

Run this code
# NOT RUN {
# read data and create DLData object
seqs <- read.table(system.file("extdata", "cjun.txt", package = "DepLogo"),  
   stringsAsFactors = FALSE)
data <- DLData(sequences = seqs[, 1],weights = log1p(seqs[, 2]) )

# create high-level plot
plot(NULL, xlim = c(1, ncol(data$data) - 1), ylim = c(0, nrow(data$data)), 
    ylab = nrow(data$data), axes = FALSE)
# and add deprects and axis
deprects(data, yoff = nrow(data$data))
axis(1)
# }

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