bioconductor-seqlogo

name	bioconductor-seqlogo
description	seqLogo takes the position weight matrix of a DNA sequence motif and plots the corresponding sequence logo as introduced by Schneider and Stephens (1990).
when_to_use	Use when: Visualizing sequence logos for DNA sequence alignments using seqLogo().; Representing position weight matrices (PWM) and their information content profiles using makePWM().; Plotting RNA sequence logos by specifying the RNA alphabet and custom fill colors.. Not for: For highly customized ggplot2-based sequence logos, use ggseqlogo instead because seqLogo uses the base grid package for rendering.; For protein/amino acid sequence logos, use ggseqlogo instead because seqLogo is currently implemented primarily for D
user-invocable	false

seqLogo

When to Use

• Visualizing sequence logos for DNA sequence alignments using seqLogo().
• Representing position weight matrices (PWM) and their information content profiles using makePWM().
• Plotting RNA sequence logos by specifying the RNA alphabet and custom fill colors.

When NOT to Use

• For highly customized ggplot2-based sequence logos, use ggseqlogo instead because seqLogo uses the base grid package for rendering.
• For protein/amino acid sequence logos, use ggseqlogo instead because seqLogo is currently implemented primarily for DNA/RNA sequences.