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[modeller_usage] default optimization and refinement protocol
- To: modeller_usage@listsrv.ucsf.edu
- Subject: [modeller_usage] default optimization and refinement protocol
- From: CARLOS ARTURO CARVAJAL ARIAS <carlos.carvajal AT correounivalle.edu.co>
- Date: Sat, 2 May 2015 09:09:42 -0500
Hello. I would like to know the parameters of the default optimization
and refinement protocol?. I mean, for a.library_schedule is
autosched.normal and a.repeat_optimization=1, but for
a.max_var_iterations, a.md_level, a.max_molpdf, what parameters are
used?
When the template has high sequence identity with the target, what
would be the recommended level of optimization and refinement?
Thanks.