Towards a new Sequence Logo Visualization 



Diverging somewhat from our normal posts is a post about a new visualization developed in our group.

Eamonn is at EuroVis 2014 in Swansea this week where he will be presenting a paper viewable here Redesigning the Sequence Logo with Glyph-based Approaches to Aid Interpretation on the redesign of the infamous Sequence Logo, some screenshots which you can see below. It supports:

  1.  multiple sequence groups for comparison;
  2. entropy or frequency based encoding of bar size;
  3. glyphs to show changes in position preference for hydropathy or charge;
  4. GestaltLine glyph to show overview of variation at a position; and
  5. Customisation to:
    1. reduce transparency of positions where variability is high; or
    2. show the consensus sequence.
Screen Shot 2014-05-14 at 11.48.11

Sequence logo with entropy encoding.


Screen Shot 2014-05-14 at 11.49.17

Sequence logo with frequency based encoding and showing detail on demand view on position hover.


Everything, as always, is open source and available with examples on our GitHub repository Let us know what you think, what should be improved, etc. via our issue tracker. The paper is available here and the presentation will be online soon!