I am trying to use the tool with PE reads but I couldn't find how to. From this document http://www.cs.indiana.edu/pub/techreports/TR709.pdf I see there is a -coption which is not present in the command line options (running rapsearch without options) and is not recognized by the tool. I also tried to run with -q with the two PE files as arguments, but apparently only the first one was recognized.
Hi,
I am trying to use the tool with PE reads but I couldn't find how to. From this document http://www.cs.indiana.edu/pub/techreports/TR709.pdf I see there is a
-coption which is not present in the command line options (runningrapsearchwithout options) and is not recognized by the tool. I also tried to run with-qwith the two PE files as arguments, but apparently only the first one was recognized.Thanks for your help Domenico