Comments on: Bioinformatics data (non-)formats http://blog.pansapiens.com/2006/10/21/bioinformatics-data-non-formats/ Ideas are cheap, implementation is expensive; act accordingly. Thu, 08 Jul 2010 03:34:55 +0000 hourly 1 http://wordpress.org/?v=3.0.1 By: Peter http://blog.pansapiens.com/2006/10/21/bioinformatics-data-non-formats/comment-page-1/#comment-8914 Peter Mon, 05 Oct 2009 16:18:43 +0000 http://blog.pansapiens.com/2006/10/21/bioinformatics-data-non-formats/#comment-8914 Good plan :) If you post this kind of thing to our mailing list or bugzilla, you should get a much faster response rate too ;) Good plan :)

If you post this kind of thing to our mailing list or bugzilla, you should get a much faster response rate too ;)

]]> By: perry http://blog.pansapiens.com/2006/10/21/bioinformatics-data-non-formats/comment-page-1/#comment-8882 perry Mon, 05 Oct 2009 04:16:08 +0000 http://blog.pansapiens.com/2006/10/21/bioinformatics-data-non-formats/#comment-8882 Cheers, thanks for the update Peter. I never did get around to writing that patch, but it's good to see that Biopython now handles these variations in the Clustal format. I think I'm going to make it my New Years resolution to post these ideas / queries etc directly to the appropriate Biopython mailing list rather than letting them languish on my poor neglected blog for years :) Cheers, thanks for the update Peter. I never did get around to writing that patch, but it’s good to see that Biopython now handles these variations in the Clustal format.

I think I’m going to make it my New Years resolution to post these ideas / queries etc directly to the appropriate Biopython mailing list rather than letting them languish on my poor neglected blog for years :)

]]> By: Peter http://blog.pansapiens.com/2006/10/21/bioinformatics-data-non-formats/comment-page-1/#comment-8556 Peter Mon, 28 Sep 2009 12:06:34 +0000 http://blog.pansapiens.com/2006/10/21/bioinformatics-data-non-formats/#comment-8556 Just FYI, Biopython 1.51 onwards accepts MUSCLE's "ClustalW like" output, which starts with "MUSCLE" instead of "CLUSTAL". For older versions of Biopython, just use the muscle -clwstrict option instead of -clw to get "real" CLUSTAL style output. Peter Just FYI, Biopython 1.51 onwards accepts MUSCLE’s “ClustalW like” output, which starts with “MUSCLE” instead of “CLUSTAL”.

For older versions of Biopython, just use the muscle -clwstrict option instead of -clw to get “real” CLUSTAL style output.

Peter

]]>