| July 1st 2009 MUSCLE v4.0 posted |
|
Version 4 is an experimental version of MUSCLE based on a new
algorithm.
This new version has several capabilities not available in previous versions, including repeat detection, inversion and palindrome detection, local multiple alignment with re-arrangements and frame-shift detection. It achieves the highest accuracy scores so far reported on BALIBASE, PREFAB and BRALIBASE. Frequent updates are likely with improvements to the algorithm and documentation. Version 3.7 is still being maintained and supported as it offers faster speed and reduced memory use on large numbers of sequences and has several capabilities not yet implemented in v4. Feedback from users interested in trying this new version is welcomed. Currently there is only minimal documentation for the new program; see the README.TXT file in the download. Source code and a build script is provided for Unix and Linux systems, plus a Microsoft Visual Studio project file. No binaries are currently provided. Download MUSCLE v4 source code.
|
| MUSCLE Downloads |
If you'd like to be notified of updates, send me an e-mail. Version 4 (see above) is likely to be updated frequently; I promise to be restrained and not send out emails every time I post a minor update. Version 3.7 posted December 2007
Version 3.6 posted September 2005 Download issues The Linux install and source code downloads are named *.tar.gz. Some browsers decompress (gunzip) such files but fail to remove the .gz extension on the file name. If you have trouble with gunzip, try renaming the file to *.tar. The PREFAB database is also available for download. |