thanks for reply. But I don't think there is a independent script in Modeller to do so. It should be add something in the loop model generating steps.
At 2012-03-03 14:14:23,"Min-yi Shen" minyishen@gmail.com wrote: >Just calculate the DOPE score for all loop models. > >On Fri, Mar 2, 2012 at 9:15 PM, albert leuven@yeah.net wrote: >> thank you very much for reply. >> but in the loop model protocol, it always use PDF for scoring. How can I use >> DOPE score for loop model assessment? >> >> THX >> At 2012-03-03 02:23:03,"Modeller Caretaker" modeller-care@salilab.org >> wrote: >>>On 3/2/12 9:59 AM, albert wrote: >>>> As far as we know the lower DOPE score, the better model. I am wondering >>>> how about the PDF score? also the lower score, the better model? eg: >>>> model A PDF=200 is better than model B PDF score=300. >>> >>>The molecular PDF is simply the sum of restraint violations. So the >>>lower the PDF, the less the restraints are violated. This typically >>>means a good model, assuming that the restraints are an accurate >>>description of reality (assessment scores such as DOPE are typically >>>more reliable). >>> >>> Ben Webb, Modeller Caretaker >>>-- >>>modeller-care@salilab.org ! http://www.salilab.org/modeller/ >>>Modeller mail list: http://salilab.org/mailman/listinfo/modeller_usage >>>_______________________________________________ >>>modeller_usage mailing list >>>modeller_usage@salilab.org >>>https://salilab.org/mailman/listinfo/modeller_usage >> >> >> >> _______________________________________________ >> modeller_usage mailing list >> modeller_usage@salilab.org >> https://salilab.org/mailman/listinfo/modeller_usage >>