Hi everyone, I am using a Python alignment program where I call for a jalview batch in order to have as output svg images with the result of my alignments. I followed the instruction I found in these web-pages:
http://www.jalview.org/node/40 http://www.jalview.org/help/html/features/clarguments.html I would like to have in the images also the SECONDARY STRUCTURE ANNOTATION and THE LOGO on CONSENSUS HISTOGRAMS. I can't figure out how to do this... I am thinking that maybe I would have to add some parameters in the Jalview properties file. Does someone know how to do this? Which the appropriate commands are? *Thanks!* *Alessandra*
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