slackbuilds_ponce/academic/seaview

SeaView is a multiplatform, graphical user interface for multiple 
sequence alignment and molecular phylogeny. Important features are:

1) SeaView reads and writes various file formats (NEXUS, MSF, 
   CLUSTAL, FASTA, PHYLIP, MASE, Newick) of DNA and protein sequences 
   and of phylogenetic trees.
   
2) SeaView drives programs muscle or clustalw for multiple sequence 
   alignment, and also allows to use any external alignment algorithm 
   able to read and write FASTA-formatted files.
   
3) Seaview drives the Gblocks program to select blocks of 
   evolutionarily conserved sites.
   
4) SeaView computes phylogenetic trees by
	a) parsimony, using PHYLIP's dnapars/protpars algorithm,
	b) distance, with NJ or BioNJ algorithms on a variety of 
	   evolutionary distances,
	c) maximum likelihood, driving program PhyML 3.0.
	 
5) SeaView draws phylogenetic trees on screen, PDF or PostScript files
6) SeaView allows to download sequences from EMBL/GenBank/UniProt 
   using the Internet.

For details and citation:
Gouy M., Guindon S. & Gascuel O. (2010) SeaView version 4 : a 
multiplatform graphical user interface for sequence alignment and 
phylogenetic tree building. Molecular Biology and Evolution 
27(2):221-224. 

This requires fltk as a build dependency, but you also need clustalw,
Gblocks, PhyML, and muscle, all of which SeaView drives.