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Submission of alignments


I am a new user of modeller6v1. I have just installed the proram. I want to know if the program allows to supply my own alignment (i.e. Target-Template alignment) direct for modelling?

Also I am looking to automate a large number of such target-template alignments for modelling, is it possible via say a PERL script, to use the command line syntax of modeller for this purpose?

Hope to hear from someone soon.

Kind regards,

Dinesh C Soares

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