SeaView is a graphical application for editing multiple sequence alignments and examining evolutionary relationships between biological sequences. It provides a unified environment for working with DNA and protein data, combining alignment editing with tools for constructing and visualising phylogenetic trees.
The software is designed for molecular phylogeny, where researchers compare sequences from different organisms or genes to investigate their evolutionary history. Its interface makes it possible to inspect sequence alignments, select regions of interest and invoke established alignment and tree-building algorithms.
SeaView integrates several external scientific tools while providing its own facilities for alignment manipulation and phylogenetic analysis. Researchers can use it to prepare sequence datasets, investigate alternative evolutionary trees and export results for further examination or publication.
This is free and open source software.
Key Features
- Graphical alignment editor for viewing and modifying nucleotide and amino acid sequence alignments.
- Import and export of formats including FASTA, PHYLIP, NEXUS, CLUSTAL, MSF and MASE.
- Support for molecular phylogenetic trees stored in Newick format.
- Integration with MUSCLE and Clustal Omega for multiple sequence alignment.
- Ability to invoke other alignment applications that support FASTA input and output.
- Integration with Gblocks for selecting conserved regions of sequence alignments.
- Phylogenetic tree construction using maximum likelihood, parsimony and distance-based methods.
- Integration with PhyML for maximum-likelihood phylogenetic inference.
- Bootstrap analysis, including Transfer Bootstrap Expectation support for assessing phylogenetic relationships.
- Gene and species tree reconciliation using Treerecs.
- Multiple phylogenetic tree windows for examining and comparing evolutionary relationships.
- Tree visualisation and export in formats suitable for scientific publications.
- Retrieval of biological sequences from online databases including GenBank and UniProt.
- Command-line operation for supported non-interactive analysis tasks.
- Cross-platform support – runs on Linux, macOS, and Windows.
Website: doua.prabi.fr/software/seaview
Support:
Developer: Manolo Gouy
License: GNU General Public License v3.0
SeaView is written in C++. Learn C++ with our recommended free books and free tutorials.
Related Software
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|---|---|
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| SeqViz | DNA, RNA, and protein sequence viewer |
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