RE: Bootstrap, re-using inital model run results

From: <Anubha_Gupta To: "Mats Karlsson" <mats.karlsson armbio.uu.se> Cc: <jos.lommerse Date: 14/02/2013 10:33 Subject: RE: [NMusers] Bootstrap, re-using inital model run results Sent by: owner-nmusers Dear Mats My question is more related to boot strapping itself. if data set and model I am working with takes long time to run, then during bootstrap run I only run $EST and skip $COV step. We will get confidence interval for parameter from bootstrap results. What is your opinion on that? Best regards Anubha ................................... Anubha Gupta, PhD Associate Director, Modeling and Simulation Clinical Pharmacology Scientific and Clinical Support CFU European Knowledge Centre Mosquito Way, Hatfield, Herts. AL10 9SN United Kingdom "Mats Karlsson" ---14/02/2013 08:50:29---Dear Jos, From: "Mats Karlsson" <mats.karlsson rmbio.uu.se> To: "'Lommerse, JPM \(Jos\)'" <jos.lommerse <nmusers Date: 14/02/2013 08:50 Subject: RE: [NMusers] Bootstrap, re-using inital model run results Sent by: owner-nmusers Eisai Limited Registered in England No. 2242511 Registered Address: European Knowledge Centre, Mosquito Way, Hatfield, Hertfordshire, AL10 9SN Please note our new telephone no. is +44 (0) 845 676 1400 and the fax is +44 (0) 845 676 1401 Dear Jos, If you haven’t run the original model (indicated by absence of lst-file with the same prefix) psn will run it before the bootstrap. If you have run it, PsN will not rerun it. It will use the results in the corresponding lst file. If you have run it and called it something else, you could use the “-out=xxx.yyy” to point to the correct file if that does not follow naming conventions. If you have not run it and really don’t want to run it, you could substitute xxx.yyy for some other output file with similar structure. Best regards, Mats Mats Karlsson, PhD Professor of Pharmacometrics Dept of Pharmaceutical Biosciences Faculty of Pharmacy Uppsala University Box 591 75124 Uppsala Phone: +46 18 4714105 Fax + 46 18 4714003 From: owner-nmusers On Behalf Of Lommerse, JPM (Jos) Sent: 14 February 2013 08:29 To: nmusers Subject: [NMusers] Bootstrap, re-using inital model run results Hi I would like to ask to NONMEM community whether it is possible to re-use the results of a nonmem model run when starting bootstrapping. As I understand, a bootstrap run using PsN starts with a single calculation of the model of interest and data set as is. Once this initial model run has completed, the actual bootstrapping starts by sampling from the initial data set to the requested number of samples. However, the initial run often has been carried out already, and the bootstrap method this seems to be repeated. I am dealing with a rather time consuming model / data set. Therefore I was wondering whether it is possible the re-use the results of a nonmem model run and start the bootstrapping directly without repeating this initial nonmem model run. I was not able to find any option to do so. Perhaps there is way around? Thanks, Jos Jos Lommerse Assoc. Prin. Scientist, Quant. Sciences Clinical PK-PD T: +31 412 661456 F: +31 412 662555 jos.lommerse MSD Molenstraat 110, 5342 CC Oss PO Box 20, 5340 BH Oss The Netherlands Notice: This e-mail message, together with any attachments, contains information of Merck & Co., Inc. (One Merck Drive, Whitehouse Station, New Jersey, USA 08889), and/or its affiliates Direct contact information for affiliates is available at http://www.merck.com/contact/contacts.html) that may be confidential, proprietary copyrighted and/or legally privileged. 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