[NMusers] FREE - RsNLME and R tools at PAGE on June 25th

ara-toolsets> Mark Mark Sale M.D. Vice President Integrated Drug Development mark.s...@certara.com Remote-Forestville CA Office Hours 9 AM - 5 PM Eastern Time +1 302-516-1684 www.certara.com [Certara Logo] This message (including any attachments) may contain confidential, proprietary, priv

[NMusers] PyDarwin and RsNLME course at PAGE

search results using Darwin Reporter - hands on using AWS workspace. Registration fee: $275 Mark Sale M.D. Vice President Integrated Drug Development mark.s...@certara.com Remote-Forestville CA Office Hours 9 AM - 5 PM Eastern Time +1 302-516-1684 www.certara.com [Certara Logo] This message

[NMusers] Announcement of Pre Conference workshop in RsNLME and machine learning with pyDarwin

results using Darwin Reporter - hands on using AWS workspace. Registration fee: $275 Academic or Regulatory /$550 Industry Register here: https://www.certarauniversity.com/store/3646717-page2024-workshop-pmx-analysis-in-r-using-rsnlme-and-certara-toolsets Mark Sale M.D. Vice President Integrated

RE: [NMusers] NONMEM Error on SAEM but not FOCEI

prohibit using PROTECT in automated methods to run models with/without BSV, or at least makes it a little more difficult. Mark Sale M.D. Vice President Integrated Drug Development mark.s...@certara.com Remote-Forestville CA Office Hours 9 AM - 5 PM Eastern Time +1 302-516-1684 www.certara.com

RE: [NMusers] Simulate with parameter uncertainty

-keep_tables I'm thinking that may be easier than trying to use NWPRI. thanks Mark Sale M.D. Vice President Integrated Drug Development mark.s...@certara.com Remote-Forestville CA Office Hours 9 AM – 5 PM Eastern Time +1 302-516-1684 www.certara.com -Original Message- From: Heine, Rob

[NMusers] Simulate with parameter uncertainty

with the code to do this? Thanks Mark Mark Sale M.D. Vice President Integrated Drug Development mark.s...@certara.com Remote-Forestville CA Office Hours 9 AM - 5 PM Eastern Time +1 302-516-1684 www.certara.com This message (including any attachments) may contain confidential, proprietary

[NMusers] Open source package for AI/Machine learning model selection in NONMEM

s work and a co-investigator for this work. His laboratory has contributed sample datasets and suggestions on the strategies for model search Mark Sale M.D. Vice President Integrated Drug Development mark.s...@certara.com Remote-Forestville CA Office Hours 9 AM - 5 PM Eastern Time +1 302-51

Re: [NMusers] error message from xpose

Bill, thanks that may be it, seems to be working, thanks Mark Mark Sale M.D. Senior Vice President, Pharmacometrics Nuventra Inc. 2525 Meridian Parkway, Suite 200 Durham, NC 27713 Phone (919)-973-0383 ms...@nuventra.com Upcoming Events: Webinar:<https://www.nuventra.com/resources/eve

[NMusers] error message from xpose

ase on a search for this error, it looks like it comes from dplyr. I'm running dplyr version 0.8.4, xpose version 0.4.7 and R version 3.6.2 with R Studio, under Windows 10. I've tried it with and without the NOAPPEND in the $TABLE records. Any suggestions would be appreciated. Mark Sale M.D. Senior V

[NMusers] LIBDECIMAL.LIB MISSING?

experience trying to run v7.4, ADVAN14 with old Intel Fortran? thanks Mark Sale M.D. Senior Vice President, Pharmacometrics Nuventra Inc. 2525 Meridian Parkway, Suite 200 Durham, NC 27713 Phone (919)-973-0383 ms...@nuventra.com CONFIDENTIALITY NOTICE The information in this transmittal

Re: [NMusers] Using evid 0 before dosing

ies of the transmittal. From: Stephen Duffull Sent: Wednesday, November 6, 2019 9:05 AM To: Dennis Fisher ; Mark Sale Cc: nmusers@globomaxnm.com Subject: RE: [NMusers] Using evid 0 before dosing WARNING: This email originated from outside of the company. Do not click links or o

Re: [NMusers] Using evid 0 before dosing

If >LLOQ has information, then !>LLOQ MUST also have information. and Yes, we evacuated for 6 days, back home now. Mark Sale M.D. Senior Vice President, Pharmacometrics Nuventra Inc. 2525 Meridian Parkway, Suite 200 Durham, NC 27713 Phone (919)-973-0383 ms...@nuventra.com CONFIDENT

Re: [NMusers] Using evid 0 before dosing

amount of information. That not withstanding, we also remove and pre-dose BQLs from the data set. Mark Sale M.D. Senior Vice President, Pharmacometrics Nuventra Inc. 2525 Meridian Parkway, Suite 200 Durham, NC 27713 Phone (919)-973-0383 ms...@nuventra.com CONFIDENTIALITY NOTICE The information

Re: [NMusers] Microsoft MPI

e is a way to specify which mpiexec to use in a given application, along with lots of other stuff I don't understand. Mark Sale M.D. Senior Vice President, Pharmacometrics Nuventra Pharma Sciences, Inc. 2525 Meridian Parkway, Suite 200 Durham, NC 27713 Phone (919)-973-0383 ms...@nuventra.com Joi

[NMusers] Microsoft MPI

MS-MPI offers several benefits: we need to run this for another parallel application, and when we installed it, it broke parallel NONMEM. We're using Intel Fortran, 64 bit Window Server (2012). thanks Mark Sale M.D. Senior Vice President, Pharmacometrics Nuventra Pharma Sciences, Inc. 2525 Me

[NMusers] Different OBJ after covariance with parallel and IMPMAP

E etc. Can the SEE values in this case be believed? Mark Sale M.D. Senior Vice President, Pharmacometrics Nuventra Pharma Sciences, Inc. 2525 Meridian Parkway, Suite 200 Durham, NC 27713 Phone (919)-973-0383 ms...@nuventra.com

[NMusers] run NMFE without actually executing

/74 batch file (for deployment reasons, would prefer not to have to edit the batch file, which would be easy enough to do, but again, I'd like a general/deployable solution, not a custom .bat file.). Can this be done, with the unedited version of NMFE??.bat or with PSN? thanks Mark Sale M.D

Re: [NMusers] IMPMAP behavior question

TO LOCAL STARTING SUBJECTS 9 TO 17 ON MANAGER: OK COLLECTING SUBJECTS 18 TO 32 ON WORKER2 and no mention of collecting subjects 33 to 85 on worker 3, or subjects 9 to 17 on worker 1. so, that could be the problem. Bob - thoughts? Mark Sale M.D. Senior Vice

[NMusers] IMPMAP behavior question

the LRT? But, basically, why is this happening? thanks Mark Sale M.D. Senior Vice President, Pharmacometrics Nuventra Pharma Sciences, Inc. 2525 Meridian Parkway, Suite 200 Durham, NC 27713 Phone (919)-973-0383 ms...@nuventra.com CONFIDENTIALITY NOTICE The information in this transmittal (including

Re: [NMusers] $PRIOR with normal for OMEGA?

to do it. I'll look into the TNPRI (didn't realize that stood for triple normal, but that makes sense). thanks Mark Mark Sale M.D. Vice President, Modeling and Simulation Nuventra Pharma Sciences, Inc. 2525 Meridian Parkway, Suite 280 Durham, NC 27713 Phone (919)-973-0383 ms...@nuventra.com

[NMusers] $PRIOR with normal for OMEGA?

Is it possible to use a normal prior for OMEGA? The default is inverse Wishart, but I'd be interested in using Normal (insuring that it is positive definite) Any ideas? thanks Mark Sale M.D. Vice President, Modeling and Simulation Nuventra Pharma Sciences, Inc. 2525 Meridian Parkway, Suite

Re: [NMusers] Laplacian, BQL and initial estimates

thanks Bob Mark Sale M.D. Vice President, Modeling and Simulation Nuventra Pharma Sciences, Inc. 2525 Meridian Parkway, Suite 280 Durham, NC 27713 Phone (919)-973-0383 ms...@nuventra.com<ms...@kinetigen.com> CONFIDENTIALITY NOTICE The information in this transmittal (including attac

Re: [NMusers] Laplacian, BQL and initial estimates

pretty standard $EST I think $ESTIMATION METH=1 NUMERICAL SLOW LAPLACIAN INTER NOTHETABOUNDTEST NOOMEGABOUNDTEST MAXEVAL= PRINT=1 NOABORT MSFO=MSF1 and just 1. Mark Sale M.D. Vice President, Modeling and Simulation Nuventra Pharma Sciences, Inc. 2525 Meridian Parkway, Suite 280

[NMusers] Laplacian, BQL and initial estimates

, LAPLACIAN ESTIMATION METHOD MUST BE USED It seems the Laplacian isn't used for the grid search for initial estimates (even though specified in $EST). any ideas? Mark Sale M.D. Vice President, Modeling and Simulation Nuventra Pharma Sciences, Inc. 2525 Meridian Parkway, Suite 280 Durham, NC 27713

Re: [NMusers] Mixture model with logistic regression

Kudos to Jeroen, who solved this for me, needed the NOINTER option on $EST, then you can use SAEM, which gave a reasonable answer, unlike FOCE. Mark Mark Sale M.D. Vice President, Modeling and Simulation Nuventra, Inc. ™ 2525 Meridian Parkway, Suite 280 Research Triangle Park, NC 27713 Office

Re: [NMusers] Mixture model with logistic regression

to the apparent population in the data set. Mark Mark Sale M.D. Vice President, Modeling and Simulation Nuventra, Inc. ™ 2525 Meridian Parkway, Suite 280 Research Triangle Park, NC 27713 Office (919)-973-0383 ms...@nuventra.com<ms...@kinetigen.com> www.nuventra.com<http://www.nuventra.com>

[NMusers] Re: Mixture model with logistic regression

ed recipient(s). If you have received this transmittal in error, please notify me immediately by reply email and destroy all copies of the transmittal. From: Bob Leary <bob.le...@certara.com> Sent: Saturday, February 20, 2016 9:24 AM To: Mark Sale; nmus

[NMusers] Re: Mixture model with logistic regression

estimate for omega. If the data are population, and MAXE- VALS=0 is not coded, then METHOD=1 LAPLACE is required. Compare with PREDICTION option. Mark Sale M.D. Vice President, Modeling and Simulation Nuventra, Inc. ™ 2525 Meridian Parkway, Suite 280 Research Triangle Park, NC 27713 O

[NMusers] Mixture model with logistic regression

), and it still gave me a very small difference in the intercept for the 2nd and 3rd populations. Is there an issue with using mixture models with logistic regression? I'm just using FOCE, Laplacian, without interaction, and LIKE. Any ideas? Mark Mark Sale M.D. Vice President, Modeling

Re: [NMusers] setup of parallel processing and supporting software - help wanted

set, except that the limit of parallelization is the number of subjects (the data set must be split up by subject). Mark Sale M.D. Vice President, Modeling and Simulation Nuventra, Inc. ™ 2525 Meridian Parkway, Suite 280 Research Triangle Park, NC 27713 Office (919)-973-0383 ms...@nuventra.com

Re: [NMusers] setup of parallel processing and supporting software - help wanted

d to learning about other peoples experience. Mark Mark Sale M.D. Vice President, Modeling and Simulation Nuventra, Inc. ™ 2525 Meridian Parkway, Suite 280 Research Triangle Park, NC 27713 Office (919)-973-0383 ms...@nuventra.com<ms...@kinetigen.com> www.nuventra.com<http://www.

Re: [NMusers] setup of parallel processing and supporting software - help wanted

completely agree, no reason to use FPI, Mark Sale M.D. Vice President, Modeling and Simulation Nuventra, Inc. ™ 2525 Meridian Parkway, Suite 280 Research Triangle Park, NC 27713 Office (919)-973-0383 ms...@nuventra.com<ms...@kinetigen.com> www.nuventra.com<http://www.nuventra.com>

Re: [NMusers] setup of parallel processing and supporting software - help wanted

WRT bootstrap, it makes much more sense to simply bootstrap the many nonmem runs (start 8 NONMEM runs at at time, rather than 1 run parallelized to 8 cores). So, no, don't use parallel NONMEM for bootstrap, run multiple bootstrap samples at the same time. Mark Mark Sale M.D. Vice

Re: [NMusers] setup of parallel processing and supporting software - help wanted

ad more...<http://www.ncbi.nlm.nih.gov/pubmed/22101761> Mark Mark Sale M.D. Vice President, Modeling and Simulation Nuventra, Inc. ™ 2525 Meridian Parkway, Suite 280 Research Triangle Park, NC 27713 Office (919)-973-0383 ms...@nuventra.com<ms...@kinetigen.com> www.nuventra.com<http://www

[NMusers] Pediatric brain scaling

that I can't find anything about dosing CNS drugs to peds, based on brain weight (and, ideally, brain clearance). Does anyone know of anything? thanks Mark Mark Sale M.D. Vice President, Modeling and Simulation Nuventra, Inc. (tm) 2525 Meridian Parkway, Suite 280 Research Triangle Park, NC 27713

[NMusers] Re: Error in table step

on tables). Tried FOCE, IMPMAP as well as SAEM. I did try removing the offending subjects, but just had the same problem with another (ultimately removed nearly 1/3 of the data, still had the error). So, ended up just going back to a simpler model. thank Mark Mark Sale M.D. Vice President

[NMusers] Error in table step

assume it is crashing calculating the conditional ETAs (don't know why it does OK in estimation). PRDERR only has the small number of error from the estimation Anyone seen this error, any suggestions on how to get rid of it (other than removeing subject 51)? Mark Mark Sale M.D. Vice

[NMusers] RE: Is it reasonable to add covarite to PD parameters kin or kout?

Li, I'm going to go out on a limb (since I haven't seen your data or understand the biology) and suggest that the baseline value is not a covariate, but is just another observation (presumably with drug concentration = 0). The baseline value is sort of by definition a function of kin. So, you

[NMusers] Modeling accelerated phase of malignancy

Dear Colleagues, I'm working on a model of a malignancy that, at some point in the course of the disease enters into an accelerated phase. I'm using a sort of standard serial compartment model, with a zero order input rate, then first order transit to the next compartment. I think the

[NMusers] Re: Error in parallel nonmem - related to file size?

?Bob, Thanks very much, setting computers = 2 solved it Mark Mark Sale M.D. Vice President, Modeling and Simulation Nuventra, Inc. (tm) 2525 Meridian Parkway, Suite 280 Research Triangle Park, NC 27713 Office (919)-973-0383 ms...@nuventra.comms...@kinetigen.com www.nuventra.comhttp

[NMusers] Error in parallel nonmem - related to file size?

NREC = 10002 gives the above error. Doesn't seem related to the size of the file, just the number of records.? Perhaps this is related to the 4 digits assigned for the length of the data file in FCON (but then why 10001, not 1)? Anyone know of a work-around? thanks Mark Mark Sale M.D

RE: [NMusers] Change of NSIG or R matrix

y.com/public/systems/aSDz2458 Original Message Subject: Re: [NMusers] Change of NSIG or R matrix From: Ekaterina Gibiansky egibian...@quantpharm.com Date: Wed, October 23, 2013 11:04 am To: Mark Sale - Next Level Solutions m...@nextlevelsolns.com, nmusers nmusers@globomax

RE: [NMusers] Change of NSIG or R matrix

Nick, As you point out, several (including myself) people have confirmed that the bootstrap samples that have successful covariance step do not differ from those that fail the covariance step. But that addresses the question of whether covariance is important predictor of "goodness" with the same

RE: [NMusers] Intel vs AMD

l consistency across different CPU types. Best wishes, Nick On 13/08/2012 8:27 a.m., Mark Sale - Next Level Solutions wrote: Martin Yes, the results can be different. Intel has been accused of "crippling" the executable when the Intel compiler is used on AMD CPUs http://www.agner.o

RE: [NMusers] Simulation: MAX no of observations per individual exceed

$SIZES NO = 1000 LIM6=1000$PROBLEM large simulationdiscussed in HTML documentation under $SIZESYou may need to increase LIM6 as well as NO (number of observations)Mark Sale MDPresident, Next Level Solutions, LLCwww.NextLevelSolns.com 919-846-9185A carbon-neutral companySee our real time solar

RE: [NMusers] How to model delayed count data due to time needed to form an event

mpartment 1, except delayed by ALAG2. PK parameters are drive only by observation in compartment 1.Mark Sale MDPresident, Next Level Solutions, LLCwww.NextLevelSolns.com 919-846-9185A carbon-neutral companySee our real time solar energy production at:http://enlighten.enphaseenergy.com/public/syst

RE: [NMusers] RE: Successful minimization and covariance

I see another long discussion with strong feelings on both side. WRT Stu Beals comments, I had the opportunity to discuss this with him once. His point (which is to my knowledge the only argument for asuccessfulcovariance per se) is that a covariance matrix that is not positivedefinitemay

RE: [NMusers] NONMEM compiler

Ronald, The web site that Oskar posted seems extremely useful, and confirmed the rumors that have been around for awhile. But, I'm wondering why anyone would use 32 bit, when 64 bit is faster (about 20%) and seems to be better behaved numerically?MarkMark Sale MDPresident, Next Level Solutions,

RE: [NMusers] Dual inhibitor synergy model

Inhibitors Using Statistical Response-Surface Modelling by Clare S Gavigan, Stella G Machado, John P Dalton, Angus Bell Antimicrobial Agents and Chemotherapy (2001) Volume: 45, Issue: 11, Publisher: American Society for Microbiology, Pages: 3175-3181 Mark Sale MD President, Next Level Solutions

RE: [NMusers] NONLINEAR PK MODEL ERROR

Yuhong, You likely have a predicted value of 0 at some point (maybe a predose sample?). With a predicted value of 0, the proportional error variance will be 0, and you have the additive error variance fixed to 0. So, the total error variance will be zero. Since the "weight" for the sum of squares

RE: [NMusers] Modeling concentration data with imprecise sampling time

. . . 1 ; this is the observation, recorded at 1 hour, but is at unknown time 2. . . 2 ; this is the observation, recorded at 2 hours, and really is3. . . 2 ; this is the observation, recorded at 3 hours, and really is $PKALAG1 = THETA(1)ALAG2 = 0K10 = THETA(2)K20 = THETA(2)Mark Sale

[NMusers] Parallel benchmarks

Nick,I'm a little surprised at your choice of benchmarks for parallel NONMEM. The original motivation for this was a run that was taking 2 to 3 weeks, and we thought it would be nice we could get that down to 2 or 3 days (best we had at the time was an 8 processor server). You are correct, if

RE: [NMusers] GPU port for NONMEM

GPU was considered in the work leading up to the upcoming parallel NONMEM. GPU computing is intended essentially for very simple algorithms applied to a large number of very similar data sets (things like bit shifting everything left, or adding a number to every value of a matrix). Really not

RE: [NMusers] NONMEM 7.1.2 run time in Windows 7

I wasn't aware that there was a 12 core Intel CPU - maybe you have a dual processor 6 core? If you have a 12 core AMD CPU, you should be aware that this only has 6 floating point cores. In addition, if you use the Intel compiler with AMD CPUs, Intel cleverly disables all optimization, so the CPU

[NMusers] Inclusion of Analytical Expressions in NONMEM control file

Georgios The most straightforward way (and the only way I know of) to do this is to call an external fortran subroutine. Pretty easy to call it (just include it in the $SUBS). I've never done a real analytical solution (like root finding or something), but I've done simple search algorithms. I'm

RE: [NMusers] High spec PC setup for NONMEM - recommendations?

Ann, We benchmarked 32 bit vs 64 bit Intel fortran with NONMEM a few years ago, with 64 bit XP - the 64 bit version was 10-20% faster.NONMEM does not multithread (although the next version will multi process). IMHO, you get the most for your money with an quad core Intel i5, it is essentially as

RE: [NMusers] High spec PC setup for NONMEM - recommendations?

, 2011 12:07 pm To: Mark Sale - Next Level Solutions m...@nextlevelsolns.com Cc: Ann Rigby-Jones ann.rigby-jo...@pms.ac.uk, "nmusers@globomaxnm.com" nmusers@globomaxnm.com Ann, RAM could be a problem if you like to run 16 jobs at once. If so, you may need a 64-bit machine to support more

RE: [NMusers] Trial optimization across multiple endpoints

Title: Block versus diagonal omega Brian, Let me risk ridicule and mention my favorite algorithm, Genetic algorithm. We've actually done some work in this area (just a little, not published anything). But, it is pretty easy to set up an optimization with constraints. Basically, you simulate

RE: [NMusers] Block versus diagonal omega

, put them in if you can. I do find that including them can greatly reduce residual (intra individual) variance, but that commonly the VPC bands are wider (making NPC, NPDE and PPC easier to pass, a side benefit).Mark Sale MDNext Level Solutions, LLCwww.NextLevelSolns.com 919-846-9185A carbon-neutral

RE: [NMusers] $COV UNCONDITIONAL PRINT=E

Sam, Many years ago Stuart scolded me for using the Unconditional option, saying that a model that didn't converge had no chance of a successful covariance step (I didn't ask why he put the option in if he didn't want people using it). But, I have had put a couple of models that appeared to be

RE: [NMusers] Honest measurements

Joachim et al. Moreover, assays are typically done in duplicate or triplicate, with only the mean reported. We had many discussions at GSK with the chemists about getting "all" the data (BQL, all replicates) promising everything imaginable (first, the data would never end up in a regulatory

RE: [NMusers] Coding a triple absorption model

Title: Coding a triple absorption model Mahesh, Consider modeling F2 as a fraction of the part of bioavailablilty left over after F1:LF1 = THETA(1)*EXP(ETA(1))F1= LF1/(1+LF1) LF2 = THETA(2)*EXP(ETA(2)) F2 = (1-F1)*(LF2/(1+LF2)) ;LF2 DESCRIBES FRACTION OF THE STILL AVAILABLE DOSE (1-F1)F3 =

RE: [NMusers] OMEGA selection

s a successful covariance step - of course everything else is never equal).Mark Sale MD Next Level Solutions, LLC www.NextLevelSolns.com 919-846-9185 Original Message Subject: RE: [NMusers] OMEGA selection From: "Hang, Yaming" yaming_h...@merck.com Date: Thu, April 23, 2

RE: [NMusers] NONMEM with ACCELLERANT

, a VPN accross the internet. Mark Sale MD Next Level Solutions, LLC www.NextLevelSolns.com 919-846-9185 Original Message Subject: [NMusers] NONMEM with ACCELLERANT From: Santosh santosh2...@gmail.com Date: Tue, April 21, 2009 4:20 pm To: nmusers@globomaxnm.com Dear NM users,Some time

RE: [NMusers] NONMEM with ACCELLERANT

Guess I didn't actually answer your question. To my knowledge, ACCELERANT for NONMEM was never run on a cluster, only on a multi processor server. I'm only familiar with GSK's and ASPEED internal experience.Mark Sale MD Next Level Solutions, LLC www.NextLevelSolns.com 919-846-9185

RE: [NMusers] OMEGA selection

Nick et al. At this risk of starting an discussion that probably has little mileage left in it. First I agree with Nick on covariance - it probably doesn't matter. But, I'd like to point out what may be an error in our logic. We content that we have demonstrated that covariance doesn't matter.

RE: [NMusers] 20 variable limit in $INPUT

Section II, V.A, V.IREFERENCES: Guide IV Section V.B, V.C.5 Mark Sale MD Next Level Solutions, LLC www.NextLevelSolns.com 919-846-9185 Original Message Subject: [NMusers] 20 variable limit in $INPUT From: andreas.kra...@actelion.com Date: Mon, March 16, 2009 9:43 am To: nmusers

RE: [NMusers] Models that abort before convergence

Leonid et al, I'm a little confused by this discussion. To make an analogy, assume that drug company A has a wonderful theory that drug B will treat a disease. Theory makes sense by your favorite epistemology criteria etc. But of course, being good scientists, we know that theories must be

[NMusers] Extremely geeky question

Background, Most modern computers use a system called ECC (Error checking/correction) wherein each memory location has an extra bit (the parity bit) that is used for checking whether the data location is "correct". Interestingly, data bits in memory can actually change randomly, due to electro

RE: [NMusers] What would the impact be, if NONMEM runs 10 times faster than now?

Kyun-Seopsee:http://www.ecpag.org/presentations/2006/0725/5_MarkSale.pdfMarkMark Sale MD Next Level Solutions, LLC www.NextLevelSolns.com 919-846-9185 Original Message Subject: [NMusers] What would the impact be, if NONMEM runs 10 times faster than now? From: "BAE, KYUN-SEOP"

[NMusers] unbalanced design

Does anyone have a reference to a publication assessing whether mixed effect modeling (NONMEM in particular) is robust for unbalances studies? I see if in a number of courses (including the original beginners course for NONMEM), but can't find a publication.thanksMark Sale MDNext Level Solutions,

RE: [NMusers] Any solutions to both minimization terminated and high relative bioavailability

Hong-GuangAnalyses across so many studies are notoriously difficult, especially with different routes of administration. My personal experience is that the most common cause for this sort of thing is errors in the data set.Make sure that the dose and concentration units are the same for all

RE: [NMusers] How to code vomit event as absorption lag and lost of amount in administration comp.

is 0, no change is made in the status of any compart- ment. PCMT is the same as for dose events.Mark (aka Golum)Mark Sale MD Next Level Solutions, LLC www.NextLevelSolns.com 919-846-9185 Original Message Subject: [NMusers] How to code vomit event as absorption lag and lost

RE: [NMusers] How to code vomit event as absorption lag and lost of amountin administration comp.

have multiple emesis events.Mark Mark Sale MD Next Level Solutions, LLC www.NextLevelSolns.com 919-846-9185 Original Message Subject: [NMusers] How to code vomit event as absorption lag and lost of amount in administration comp. From: Galadriel [EMAIL PROTECTED] Date: Tue, July

RE: [NMusers] algorithm limits

Saik, Thanks for your views on this - are there some simulation results that you've seen, or other basis for the limit of 2-3? Mark Sale MD Next Level Solutions, LLC www.NextLevelSolns.com 919-846-9185 Original Message Subject: Re: [NMusers] algorithm limits From

RE: [NMusers] algorithm limits

MD Next Level Solutions, LLC www.NextLevelSolns.com 919-846-9185 Original Message Subject: Re: [NMusers] algorithm limits From: Leonid Gibiansky [EMAIL PROTECTED] Date: Sat, July 19, 2008 5:36 pm To: Mark Sale - Next Level Solutions [EMAIL PROTECTED] Cc: nmusers@globomaxnm.com Hi

RE: [NMusers] algorithm limits

: Sat, July 19, 2008 9:37 pm To: Mark Sale - Next Level Solutions [EMAIL PROTECTED] Cc: nmusers@globomaxnm.com Mark, The description that you gave confirms that population model has limited value unless four parameters (baseline, percent change, time to drop and time to recovery) correlate somehow

RE: [NMusers] Build a cell-cycle based tumor growth model

t gets a little more complicated.you can put whatever you want into it, it will be save between calls to DES, and it available in $PK and $ERROR (you'll need to put in the same COMMON statements in $PK or $ERROR).Mark Sale MD Next Level Solutions, LLC www.NextLevelSolns.com 919-846-9185 -

[NMusers] Presentation on modeling by Next Level Solutions

Dear Colleagues,Next Level Solutions will be presenting a seminar titled"General approach to population pk/pd model selection, opportunity for improvement?"at the Indiana University/Purdue University Clinical Pharmacology Division in Indianapolis on May 27thcontact me or Dave Flockhart ([EMAIL

RE: [NMusers] automating the writing of models

Carlos, I don't have any references for drudevo other than their website,Here is a reference for my workhttp://www.springerlink.com/content/m7757p17u5058887/and here is one for Ken Kowalski's paperhttp://www.springerlink.com/content/r20052w42710217k/Kens program, last I checked, ran from SAS.and

RE: [NMusers] automating the writing of models

Carlos I'm not sure what you want to do. DruDevo (www.drudevo.com, don't know if they are still around) has a web site that seems to imply they do some of this: Automated structural model search Automated statistical model search Automated multi level covariate search Automated multi level

RE: [NMusers] output SE of population PK parameters in Nonmem

Rik,I don't know anything about the non-parametric estimates: 'expected value of ETA' and 'Covariance matrix of ETAI. But, think the correlation matrix is CORRM in COMMON /CM12/ COVM(LPAR3),COVINM(LPAR3),STHTA(LTH),SEN(LVR,LVR), 1 CORRM(LPAR3),NVLS,VLS(LPAR)and you can get at it something like

RE: RE : [NMusers] output SE of population PK parameters in Nonmem

Jin, Another options it the Fortran app nmsee (ftp://ftp.globomaxnm.com/Public/nonmem/nmsee/)or a version of nmsee I recently put together (cleverly called nmsee2) at http://www.nextlevelsolns.com/downloads.html. These are both post-processors that read the NONMEM output file (and so you only get

[NMusers] Why does covariance fail?

I'm thinking of doing a somewhat formal analysis of the meaning of a failed covariance step. Some years ago Stu Beal explained that (as I recall), if the covariance step fails you cannot be sure that the minimum isn't a saddle point, which makes sense to me, and is consistent (I think), with the

RE: [NMusers] error (157) forrtl: severe

you explain that the same models reformulated with ANDAN6 run? Well, they take very long... and none of them has run to a successful minimization yet. JoachimMark Sale - Next Level Solutions [EMAIL PROTECTED] 07.12.2007 13:44 <tr! valign="top"> To [EMAIL PROTECT

RE: [NMusers] error (157) forrtl: severe

these file. It doesn't (usually) happen with the original data set, unless you try to run NMTRAN simultaneously. Mark Sale MD Next Level Solutions, LLC www.NextLevelSolns.com 919-846-9185 Original Message Subject: RE: [NMusers] error (157) forrtl: severe From: "Brian M. S

[NMusers] Declining to do simulation bug/feature

I think I recently saw a thread about this, but is there a way to fix the bug/feature where NONMEM v6 gives this message:0THE SIMULATION TASK REQUIRES THAT A BETTER FINAL ESTIMATEBE AVAILABLE IN THE MODEL SPECIFICATION FILEand will do a simulation with an MSF regardless?thanksMarkMark Sale MD

RE: [NMusers] Reporting Modeling Results

PROTECTED] Date: Fri, October 26, 2007 2:56 pm To: "'James G Wright'" [EMAIL PROTECTED], "'Mark Sale - Next Level Solutions'" [EMAIL PROTECTED] Cc: "'nmusers'" nmusers@globomaxnm.com James, Mark I don't have time to go through all RCTs in this manner. But I wil

RE: [NMusers] Reporting Modeling Results

modeling to select dosing regimens, and finish with a purely regulatory and marketing piece of work that I'm familiar with:http://www.aesnet.org/Visitors/AnnualMeeting/A! bstracts/dsp_Abstract.cfm?id=2578(this got published as a real article, but I can't find a link to the paper).Mark Sale MD Next Level

RE: [NMusers] Reporting Modeling Results

Original Message Subject: RE: [NMusers] Reporting Modeling Results From: "Stephen Duffull" [EMAIL PROTECTED] Date: Thu, October 25, 2007 6:52 pm To: "'Mark Sale - Next Level Solutions'" [EMAIL PROTECTED] Cc: "'nmusers'" nmusers@globomaxnm.com Mark, Nick

RE: [NMusers] permissible band matrix

Sam,I think you should have gotten the error:INITIAL ESTIMATE OF OMEGA HAS A NONZERO BLOCK WHICH IS NUMERICALLY NOT POSITIVE DEFINITEwhich is the case. (you can check this in Excel, using the MDETERM function, the determinant is -2945). When you get this message, try reducing the off-diagonal

[NMusers] updated NONMEM output viewer

Dear Colleagues,The windows based NONMEM output viewer described earlier has been updated, with bug fixes. Bug fixes are that it now correctly handles SAME blocks and handles missing files and files that are not NONMEM output files correctly. Additional features include printing out SE of

RE: [NMusers] Minimization terminated ?

, Cmax, Cmin) and some measure of variability (SE of AUC etc), since an artificially large variability can fool PPC. Mark Sale MDNext Level Solutions, LLCwww.NextLevelSolns.com Original Message Subject: Re: [NMusers] Minimization terminated ? From: Nick Holford [EMAIL PROTECTED] Da

RE: [NMusers] How to solve it? ERROR: PARAMETER ESTIMATE IS NEAR ITS BOUNDARY

.TXT, from the NONMEM home directory.The Introduction to NONMEM VI does alert the user that there are newerror messages but does not provide the details. This response will becopied to nmusers so that users are better informed.Thank you for your message.Tom Ludden Mark Sale MDNext Level

[NMusers] NONMEM output viewer

Dear Colleagues, I've created a Windows application for summarizing NONMEM output file, called nmsee2 (after the original NMSEE). I've put the setup files on the Next Level Solutions web site (http://www.nextlevelsolns.com/downloads.html, near the bottom). This application was written to extract

RE: [NMusers] How to generate an output file with individual parameters at each iteration

number is available in PK, but you have it in this file with the standard NONMEM output. Mark Sale MD Next Level Solutions, LLC www.NextLevelSolns.com Original Message Subject: [NMusers] How to generate an output file with individual parameters at each iteration From: Benjamin

RE: [NMusers] NONMEM ODE solver

of that range again)? Mark Mark Sale MD Next Level Solutions, LLC www.NextLevelSolns.com Original Message Subject: Re: [NMusers] NONMEM ODE solver From: Alison Boeckmann [EMAIL PROTECTED] Date: Mon, May 28, 2007 1:01 pm To: Benjamin Ribba [EMAIL PROTECTED], nmusers

RE: [NMusers] General question on modeling

-dosing drugs, and estimated the resulting fatalities. Making dosing more complicated is unlikely the help. In addition, each company very much wants their drug to be simpler to use than their competitors. Mark Sale MD Next Level Solutions, LLC www.NextLevelSolns.com Original Message

RE: [NMusers] WARNING 48

from the last subject. This is all OK for the minimization, you just need to be aware of it when interpreting output, plots, tables etc. that the first value for CONC for a subject will not be correct. Mark Mark Sale MD Next Level Solutions, LLC www.NextLevelSolns.com Original Message