yes. there is a limit - specified as the total number of gaps/residues in the alignment. Unfortunately, Jalview doesn't yet warn you when you've exceeded it (I just added that to our todo list). Sorry about that!
If you are able to install the 'VMWare player' then you could download your own JABA installation from http://www.compbio.dundee.ac.uk/jabaws/ and adjust the configuration file to support conservation analysis for more sequences. The relevant file is conf/settings/AAConLimits.xml (http://source.jalview.org/gitweb/?p=jabaws.git;a=blob;f=conf/settings/AAConLimits.xml;h=6a3b1c2c327dfe2c4085ea948187643a3498051a;hb=refs/heads/JABAWS_Release_2_1_0) Jim. On 27/10/2014 15:41, Patel, Hershna wrote: > Hello, > > Is there a limit to the number of sequences that can be used to calculate > conservation scores using the Valdar option in the AACon Web Service? I have > ~1200 sequences and am unable to retrieve a conservation score. Please help. > > Regards, > Hershna > _______________________________________________ > Jalview-discuss mailing list > [email protected] > http://www.compbio.dundee.ac.uk/mailman/listinfo/jalview-discuss _______________________________________________ Jalview-discuss mailing list [email protected] http://www.compbio.dundee.ac.uk/mailman/listinfo/jalview-discuss
