Skittle: a 2-dimensional genome visualization tool.

ABSTRACT:

Background

It is increasingly evident that there are multiple and overlapping patterns within the genome, and that these patterns contain different types of information--regarding both genome function and genome history. In order to discover additional genomic patterns which may have biological significance, novel strategies are required. To partially address this need, we introduce a new data visualization tool entitled Skittle.

Results

This program first creates a 2-dimensional nucleotide display by assigning four colors to the four nucleotides, and then text-wraps to a user adjustable width. This nucleotide display is accompanied by a "repeat map" which comprehensively displays all local repeating units, based upon analysis of all possible local alignments. Skittle includ

SUBMITTER: Seaman JD 

PROVIDER: S-EPMC2817707 | biostudies-literature | 2009 Dec

REPOSITORIES: biostudies-literature