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SEAVIEW and PHYLO_WIN: two graphic tools for sequence alignment and molecular phylogeny
1CNRS UMR 5558, Biométrie, Génétique et Biologie des Populations, Université Claude Bernard Lyon, Villeurbanne, France. galtier@biomserv.univ-lyon1.fr
Computer Applications in the Biosciences : CABIOS
|December 1, 1996
Summary
SEAVIEW and PHYLO_WIN are user-friendly graphic tools for sequence alignment and phylogenetic tree building. These programs simplify complex molecular phylogenetics analyses for researchers using X Windows-Unix systems.
Area of Science:
- Bioinformatics
- Computational Biology
- Molecular Phylogenetics
Background:
- Sequence alignment and phylogenetic tree construction are fundamental in molecular biology.
- Existing tools may lack user-friendliness or comprehensive functionality for complex analyses.
Purpose of the Study:
- To introduce SEAVIEW and PHYLO_WIN, integrated graphic tools for sequence alignment and phylogenetic analysis.
- To provide researchers with intuitive and powerful software for molecular phylogenetics.
Main Methods:
- SEAVIEW offers manual/automatic sequence alignment via CLUSTALW integration and a dot-plot routine for large sequences.
- PHYLO_WIN supports various phylogenetic tree building methods (neighbor joining, parsimony, maximum likelihood) with bootstrap analysis.
- Both tools feature mouse-driven interfaces, on-line help, and data management capabilities.
Main Results:
- SEAVIEW facilitates alignment of large sequences with length variations.
- PHYLO_WIN enables comprehensive phylogenetic tree construction and evaluation.
- User-defined taxonomic groups and conserved regions can be stored, streamlining data management.
Conclusions:
- SEAVIEW and PHYLO_WIN provide an integrated, user-friendly solution for sequence alignment and molecular phylogenetics.
- The tools enhance efficiency and accessibility for researchers in bioinformatics and computational biology.
- Free availability promotes wider adoption and advancement in the field.