Visualization – ISA tools http://isa-tools.org Standardizing metadata for scientific experiments Thu, 19 Apr 2018 15:23:29 +0000 en-GB hourly 1 https://wordpress.org/?v=4.9.5 113852667 Towards a new Sequence Logo Visualization http://isa-tools.org/2014/06/towards-a-new-sequence-logo-visualization/ Mon, 09 Jun 2014 10:44:55 +0000 http://isatools.wordpress.com/?p=686 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

https://github.com/ISA-tools/SequenceLogoVis

. 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!

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