Welcome to SeqAn
What is SeqAn?
SeqAn is an open source C++ library of efficient algorithms and data structures for the analysis of sequences with the focus on biological data. Our library applies a unique generic design that guarantees high performance, generality, extensibility, and integration with other libraries. SeqAn is easy to use and simplifies the development of new software tools with a minimal loss of performance.
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| Programming Language: | ISO C++ |
| Supported Platforms: | Windows: Visual C++ 7 (.net 2003), Visual C++ 8 (.net 2005), Visual C++ 9 (.net 2008), MinGW Linux, Mac OS X, Solaris: G++ 3.x, G++ 4.x |
| License: |
| For details about SeqAn you can refer to the new SeqAn book from CRC Press which is for example available from Amazon. |  |
News
19.11.2009
The SeqAn book has appeared
For more information please visit the CRC Press website.
15.09.2009
New Version 1.2 released
We just released a new version 1.2 of SeqAn. You can download it here. What's new in this release:
- 5 more applications, i.e. DFI, MicroRazerS, PairAlign, SeqCons, TreeRecon
- stable release of RazerS supporting paired-end read mapping and configurable sensitivity
- new alignment algorithms, e.g. banded, configurable alignments (overlap, semi-global, ...)
- realignment algorithm
- NGS data structures and formats, e.g. SAM, Amos, ...
- new alphabets, e.g. Dna with base call qualities, profile characters
- auxiliary data structures and algorithms, e.g. double ended queue, command line parser
- positional scores
- CMake support
11.06.2009
Trac and SVN moved
Due to restrictions of our Webserver we were enforced to move Trac and SVN to a seperate server. The new URLs are:
| Trac | |
| SVN |
If you work with a repository that you have checked out before the move, you can switch to the new server with:
svn switch --relocate https://www.seqan.de/svn https://svn.mi.fu-berlin.de/seqan
or if you don't have an account at the Free University Berlin:
svn switch --relocate www.seqan.de/svn svn.mi.fu-berlin.de/seqan
11.06.2009
SeqAn mailing list
We created a mailing list seqan-dev for SeqAn specific or users-help-users discussions. Send e-mail to seqan-dev
lists.fu-berlin.de.
08.06.2008
New Version 1.1 released
We just released a new version 1.1 of SeqAn. You can download it here.
15.02.2008
SeqAn Trac online
We now offer a bug tracking system. Following the Development link, you can
- Watch the list of changes of SeqAn under "Timeline".
- Watch our future plans and milestones under "Roadmap".
- Browse the current SeqAn source as well as the source of former snapshots and releases under "Browse Source".
- Report a bug and track it until the bug is fixed under "View Tickets" and "New Ticket"
Enjoy!
09.01.2008
SeqAn paper published
The official SeqAn paper was published in the BMC Bioinformatics journal:
A. Döring, D. Weese, T. Rausch, and K. Reinert, SeqAn - An efficient, generic C++ library for sequence analysis, BMC Bioinformatics 2008, 9:11
In this paper we describe the design and content of SeqAn and demonstrate its use by giving two examples.
21.12.2007
SeqAn released
We released the version 1.0 of our sequence library. See this tutorial page for installation instructions.
