Hi, I am a new user of modeller9v3 and I can't write the first script with which I will search for sequences similar to the target one. I also consult the manual of modeller6v2, will I confuse? If I have understood well, the appropriate command is sequence_search which has many options. I must use all the options? I can't understand the syntax of the command, i.e I must type mod9v3 before the command, but I read that the syntax is mod9v3 script_ .top. This script what does it contain? (I can't understand anything becose I start now to deal with bioinformatics). Please help me. Thank you very much, Maria.
matziast@med.uth.gr wrote: > I am a new user of modeller9v3 and I can't write the first script with which I > will search for sequences similar to the target one. I also consult the manual > of modeller6v2, will I confuse?
Why would you want to do that? Use the Modeller 9v3 manual. The 6v2 manual is out of date.
> If I have understood well, the appropriate > command is sequence_search which has many options.
No, sequence_search is not the best way to do this any more. We recommend profile.build() instead. I suggest you work through the basic modeling tutorial on our website to understand how this works. But there are many ways to find templates - for example, you could do a BLAST search.
Ben Webb, Modeller Caretaker
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matziast＠med.uth.gr -
Modeller Caretaker