A new sequence logo plot to highlight enrichment and depletion.

ABSTRACT:

Background

Sequence logo plots have become a standard graphical tool for visualizing sequence motifs in DNA, RNA or protein sequences. However standard logo plots primarily highlight enrichment of symbols, and may fail to highlight interesting depletions. Current alternatives that try to highlight depletion often produce visually cluttered logos.

Results

We introduce a new sequence logo plot, the EDLogo plot, that highlights both enrichment and depletion, while minimizing visual clutter. We provide an easy-to-use and highly customizable R package Logolas to produce a range of logo plots, including EDLogo plots. This software also allows elements in the logo plot to be strings of characters, rather than a single character, extending the range of applications beyond the usual

SUBMITTER: Dey KK 

PROVIDER: S-EPMC6288878 | biostudies-literature | 2018 Dec

REPOSITORIES: biostudies-literature