Vim Highlighting For Msa

Question

[Lee Katz]

Hi, is there a VIM file/script out there that would highlight a multiple sequence alignment appropriately, like in clustalx? I think it would be nice to quickly open an alignment on the command line and view it.

Answer 1

[Julien Textoris]

I found this but did not try it :

Vim Alignment highlighting. Vim highlighting files for DNA sequence alignments :

SCREENSHOT and download

The read me file says :

README: Vim Align syntax

Version: 2009-10-15

By: Johan Nylander

Contact: jnylander @ users.sourceforge.net

...

Installation: 1. Put the align.vim in your ~/.vim/syntax folder 2. To set the filetype to align do :set filetype=align :syntax enable

Hope it will help !

Julien

[Lee Katz]

Beautiful, thank you

Answer 2

[Casey Bergman]

I know you are asking for a VIM solution, but you may want to look into the EMACS based RALEE command line alignment editor.

[Lee Katz]

Usually I use VIM, but this looks like a really good solution for when I use EMACS, thanks!