Colorstock, SScolor, Raton: RNA alignment visualization tools.

ABSTRACT: UNLABELLED:Interactive examination of RNA multiple alignments for covariant mutations is a useful step in non-coding RNA sequence analysis. We present three parallel implementations of an RNA visualization metaphor: Colorstock, a command-line script using ANSI terminal color; SScolor, a Perl script that generates static HTML pages; and Ratón, an AJAX web application generating dynamic HTML. Each tool can be used to color RNA alignments by secondary structure and to visually highlight compensatory mutations in stems. AVAILABILITY:All source code is freely available under the GPL. The source code can be downloaded and a prototype of Ratón can be accessed at http://biowiki.org/RnaAlignmentViewers.

SUBMITTER: Bendana YR 

PROVIDER: S-EPMC7109877 | biostudies-literature | 2008 Feb

REPOSITORIES: biostudies-literature