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MView is a command line utility that extracts and reformats the results ofa sequence database search or a multiple alignment, optionally adding HTMLmarkup for web page layout. It can also be used as a filter to extract andconvert searches or alignments to common formats.

Inputs:

• Sequence database search: BLAST, FASTA suites.
• Multiple sequence alignment: CLUSTAL, HSSP, MSF, FASTA, PIR, MAF.

Outputs:

• HTML, FASTA, CLUSTAL, MSF, PIR, RDB (tab-separated).

The tool is used in molecular biology and biomedical research for dataanalyses and as a component in various bioinformatics web services. Researchpapers citing MView are indexed onGoogleScholar.

Full documentation can be found in themanual, a copy of which isbundled with the code.

MView is implemented in Perl, version 5 as a self-contained command lineprogram that should run cross-platform.

Perl is generally installed on Linux and UNIXsystems. MView is known to work on Windows withStrawberry Perl.

• Thecurrent release can be downloaded from SourceForgeas a gzip or bzip2 compressed tar archive.
• Olderreleases and historicaldownload statistics can also be found on SourceForge.
• Thelatest code can bedownloaded direct from GitHub by clicking the green "Clone or download"button and following the instructions to either clone the git repository ordownload a ZIP archive.

There are several ways to install MView:

• Linux, Apple, UNIX
• Windows
• Perl module (advanced)

Each release of MView is regression tested against hundreds of sample datainputs for all the sequence database search and alignment formats and versionsthereof that are supported, together with known edge cases. This is well over0.5GB of material, so it's not currently available externally.

Please open an issue on the MViewissue tracker or send an email tobiomview@gmail.com.

If MView isn't able to parse your input file or produces a warning message, itwould be very helpful if you can include/attach the data file in your messageso that I can (1) quickly reproduce the error, and (2) add the example to thetest suite.

If you use MView in your work, please cite:

Brown, N.P., Leroy C., Sander C. (1998). MView: A Web compatible databasesearch or multiple alignment viewer.Bioinformatics.14 (4):380-381.[PubMed]

MView is free software; you can redistribute it and/or modify it under theterms of the GNU General Public License as published by the Free SoftwareFoundation; either version 2 of the License, or (at your option) any laterversion.

People who contributed early code or suggestions include C. Leroy and othermembers of the former Sander group at EBI. Useful suggestions relating to theEBI sequence database search services have come from R. Lopez, W. Li andH. McWilliam at EBI. Thanks to the many other people who have suggested newfeatures and reported bugs. Finally, thank you to everyone who has cited MViewin their publications.