Bioinformatics

SeaView – graphical user interface for molecular phyologeny

SeaView is a multi-platform, graphical user interface for multiple sequence alignment and molecular phylogeny.

SeaView drives the Muscle, Clustal Omega, Gblocks, and PhyML programs and uses code from the PHYLIP package for parsimony.

SeaView uses the FLTK project for its user interface.

Features include:

  • Reads and writes various file formats (NEXUS, MSF, CLUSTAL, FASTA, PHYLIP, MASE, Newick) of DNA and protein sequences and of phylogenetic trees.
  • Drives programs muscle or Clustal Omega for multiple sequence alignment, and also allows to use any external alignment algorithm able to read and write FASTA-formatted files.
  • Drives the Gblocks program to select blocks of evolutionarily conserved sites.
  • Computes phylogenetic trees by:
    • parsimony, using PHYLIP’s dnapars/protpars algorithm,
    • distance, with NJ or BioNJ algorithms on a variety of evolutionary distances,
    • maximum likelihood, driving program PhyML 3.1.
  • Use the Transfer Bootstrap Expectation method to compute the bootstrap support of PhyML and distance trees.
  • Prints and draws phylogenetic trees on screen, SVG, PDF or PostScript files.
  • Download sequences from EMBL/GenBank/UniProt using the Internet.

Website: doua.prabi.fr/software/seaview
Support: Changelog
Developer: Manolo Gouy
License: GNU General Public License

SeaView is written in C++. Learn C++ with our recommended free books and free tutorials.

Return to Biology Tools


Popular series
Free and Open Source SoftwareThe largest compilation of the best free and open source software in the universe. Each article is supplied with a legendary ratings chart helping you to make informed decisions.
ReviewsHundreds of in-depth reviews offering our unbiased and expert opinion on software. We offer helpful and impartial information.
Alternatives to Proprietary SoftwareReplace proprietary software with open source alternatives: Google, Microsoft, Apple, Adobe, IBM, Autodesk, Oracle, Atlassian, Corel, Cisco, Intuit, and SAS.
GamesAwesome Free Linux Games Tools showcases a series of tools that making gaming on Linux a more pleasurable experience. This is a new series.
Artificial intelligence iconMachine Learning explores practical applications of machine learning and deep learning from a Linux perspective. We've written reviews of more than 40 self-hosted apps. All are free and open source.
Guide to LinuxNew to Linux? Read our Linux for Starters series. We start right at the basics and teach you everything you need to know to get started with Linux.
Alternatives to popular CLI tools showcases essential tools that are modern replacements for core Linux utilities.
System ToolsEssential Linux system tools focuses on small, indispensable utilities, useful for system administrators as well as regular users.
ProductivityLinux utilities to maximise your productivity. Small, indispensable tools, useful for anyone running a Linux machine.
AudioSurveys popular streaming services from a Linux perspective: Amazon Music Unlimited, Myuzi, Spotify, Deezer, Tidal.
Saving Money with LinuxSaving Money with Linux looks at how you can reduce your energy bills running Linux.
Home ComputersHome computers became commonplace in the 1980s. Emulate home computers including the Commodore 64, Amiga, Atari ST, ZX81, Amstrad CPC, and ZX Spectrum.
Now and ThenNow and Then examines how promising open source software fared over the years. It can be a bumpy ride.
Linux at HomeLinux at Home looks at a range of home activities where Linux can play its part, making the most of our time at home, keeping active and engaged.
Linux CandyLinux Candy reveals the lighter side of Linux. Have some fun and escape from the daily drudgery.
DockerGetting Started with Docker helps you master Docker, a set of platform as a service products that delivers software in packages called containers.
Android AppsBest Free Android Apps. We showcase free Android apps that are definitely worth downloading. There's a strict eligibility criteria for inclusion in this series.
Programming BooksThese best free books accelerate your learning of every programming language. Learn a new language today!
Programming TutorialsThese free tutorials offer the perfect tonic to our free programming books series.
Linux Around The WorldLinux Around The World showcases usergroups that are relevant to Linux enthusiasts. Great ways to meet up with fellow enthusiasts.
Stars and StripesStars and Stripes is an occasional series looking at the impact of Linux in the USA.
Subscribe
Notify of
guest

This site uses Akismet to reduce spam. Learn how your comment data is processed.

0 Comments
Inline Feedbacks
View all comments