tcR (version 1.3)

vis.logo: Logo - plots for amino acid and nucletide profiles.

Description

Plot logo-like graphs for visualising of nucleotide or amino acid motif sequences / profiles.

Usage

vis.logo(.data, .replace.zero.with.na = T, .jitter.width = 0.01,
  .jitter.height = 0.01, .dodge.width = 0.15)

Arguments

.data

Output from the kmer.profile function.

.replace.zero.with.na

If T than replace all zeros with NAs, therefore letters with zero frequency wont appear at the plot.

.jitter.width,.jitter.height,.dodge.width

Parameters to position_jitterdodge for aligning text labels of letters.

Value

• ggplot2 object

Examples

d <- kmer.profile(c('CASLL', 'CASSQ', 'CASGL'))
vis.logo(d)