Re: [NMusers] Error in LSODA: Code -5

) Leonid -- Leonid Gibiansky, Ph.D. President, QuantPharm LLC web:www.quantpharm.com e-mail: LGibiansky at quantpharm.com tel:(301) 767 5566 On 12/11/2015 9:40 AM, e.olof...@lumc.nl wrote: Usually tolerance criteria for ODE solvers apply

Re: [NMusers] Error in LSODA: Code -5

/simplifications/improvements, including changing the estimation method (try FO if nothing helps, and then used FO final estimates to start something more advanced) Leonid -- Leonid Gibiansky, Ph.D. President, QuantPharm LLC web:www.quantpharm.com e-mail

Re: [NMusers] Confidence interval calculations

Hi Dennis, Bootstrap would be an obvious choice (for the entire range of Cp values): fit 1000 models to 1000 sets, and for each X value compute CI of Y. Leonid -- Leonid Gibiansky, Ph.D. President, QuantPharm LLC web:www.quantpharm.com e-mail

Re: [NMusers] PRED for BLQ-like observations

and W in the Nonmem output file (that you read to the R data frame "data"), you can re-define if(BQL == 1) data$PRED = data$LLOQ - qnorm(data$PRED)*data$W# R code (I have not tested it; use on your own risk :) ) Leonid ------ Leonid Gibia

[NMusers] Box-Cox tranformation

-- Leonid Gibiansky, Ph.D. President, QuantPharm LLC web:www.quantpharm.com e-mail: LGibiansky at quantpharm.com tel:(301) 767 5566

Re: [NMusers] Error in table step

values you can use FNLETA=0; then Nonmem will use estimation step etas to compute individual predictions. Leonid -- Leonid Gibiansky, Ph.D. President, QuantPharm LLC web:www.quantpharm.com e-mail: LGibiansky at quantpharm.com tel:(301) 767 5566 On 9/27

Re: [NMusers] Imputation of multiple categorical covariates with missing data

all known genotypes. Leonid ------ Leonid Gibiansky, Ph.D. President, QuantPharm LLC web:www.quantpharm.com e-mail: LGibiansky at quantpharm.com tel:(301) 767 5566 On 9/23/2015 4:44 AM, ykl7 . wrote: Dear NMusers, I would like to investigate the effect of several genotypes

Re: FW: FW: [NMusers] Question of fitting population PK model using summary statistics of data instead of raw data

) assumptions about random effect structure. I would rather use explicit assumptions. Leonid -- Leonid Gibiansky, Ph.D. President, QuantPharm LLC web:www.quantpharm.com e-mail: LGibiansky at quantpharm.com tel:(301) 767 5566 On 9/11/2015 1:38 PM, Penny Zhu

Re: FW: [NMusers] Question of fitting population PK model using summary statistics of data instead of raw data

model and the structure of the IIV model (ETAs on CL, or V, or both equal, etc.). You may get some rough idea about the magnitude of the IIV but you may need strong assumptions about the residual and IIV model. Leonid -- Leonid Gibiansky, Ph.D. President

Re: [NMusers] Is “DOSE=0” accepted by NONMEM?

value K = THETA(2)*EXP(ETA(2)) ; rate of decay TY = C0*EXP(-K*TIME) ; individual prediction Y = TY*(1+EPS(1)); proportional error model Leonid -- Leonid Gibiansky, Ph.D. President, QuantPharm LLC web:www.quantpharm.com e-mail: LGibiansky

Re: [NMusers] RE: Estimation of ke0 from raw data

does it mean "disappear"; may be area inside the loop is small). The time shift that provides smallest hysteresis area is the delay time. Leonid ------ Leonid Gibiansky, Ph.D. President, QuantPharm LLC web:www.quantpharm.com e-mail:

[NMusers] TMDD Workshop at ACOP-2015

Dear All, We plan to present a TMDD workshop at ACoP (October 8th, 2015, see below) but the current enrollment is near the low boundary of workshop acceptance limit. If you plan to attend, could you please register at ACoP web site or let me know (by replying to me, not to nmusers group) if

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

one option is to use BASE and KOUT as primary parameters and compute KIN=BASE*KOUT Then one can either fix BASE=(observed base) or use BASE=(observed base)*EXP(ETA()) to account for the random noise of observations. Leonid -- Leonid Gibiansky, Ph.D

Re: [NMusers] Zeros in OMEGA matrix

) for MYETA matrix that is forbidden by the band matrix for ETA(1:4). Leonid -- Leonid Gibiansky, Ph.D. President, QuantPharm LLC web:www.quantpharm.com e-mail: LGibiansky at quantpharm.com tel:(301) 767 5566 On 7/3/2015 9:58 AM, Gavin Jarvis wrote: Dear

Re: [NMusers] Simulo: a new service for drug trial simulation

-- Leonid Gibiansky, Ph.D. President, QuantPharm LLC web:www.quantpharm.com e-mail: LGibiansky at quantpharm.com tel:(301) 767 5566 On 6/23/2015 4:48 AM, Faelens, Ruben (Belgium) wrote: Dear NONMEM users, We all know how difficult it is to simulate full drug

Re: [NMusers] Simulo: a new service for drug trial simulation

(1) = 1, this will set F1 to 1/2 $ERROR IPRED=Y ; this is PD measure that need to be above 100 IF(IPRED.LT.100) COM(1)=1 ; if PD drops below 100 at any time, halve future doses Leonid -- Leonid Gibiansky, Ph.D. President, QuantPharm LLC web

[NMusers] Modeling of Biologics Workshops: October 8, 2015 (at ACoP-6)

Dear All After some break, QuantPharm LLC (Leonid Gibiansky and Ekaterina Gibiansky) will again present the workshop on Modeling of Biologics with Target-Mediated Disposition as a satellite workshop of ACoP6 conference, October 8, 2015. The TMDD workshop provides an overview of the PK

Re: [NMusers] Population PKPD using hair drug concentration

but you should be able to see it by increasing or decreasing the number of transit compartments. Regards, Leonid -- Leonid Gibiansky, Ph.D. President, QuantPharm LLC web:www.quantpharm.com e-mail: LGibiansky at quantpharm.com tel:(301) 767 5566 On 6/12

Re: [NMusers] variation of time values in output data

-- Leonid Gibiansky, Ph.D. President, QuantPharm LLC web:www.quantpharm.com e-mail: LGibiansky at quantpharm.com tel:(301) 767 5566 On 4/20/2015 12:12 PM, Diane-Charlotte Imbs wrote: Dear nonmem users, We used the option “-2 RATE” of NONMEM (actual rate

Re: [NMusers] Turning off IEEE floating point messages for new gfortran compilers

machines? Thanks Leonid -- Leonid Gibiansky, Ph.D. President, QuantPharm LLC web:www.quantpharm.com e-mail: LGibiansky at quantpharm.com tel:(301) 767 5566 On 3/30/2015 7:32 PM, Bauer, Robert wrote: Dear nmusers: Some of you may have been starting

Re: [NMusers] RE: Standard errors of estimates for strictly positive parameters

representations are related (approximately) as SE(THETA2)=SE(THETA(1))/THETA(1) (propagation of error rule). Given SE(THETA(1)) and THETA(1) you can estimate SE(THETA(2)) and simulate accordingly. Thanks Leonid -- Leonid Gibiansky, Ph.D. President, QuantPharm

Re: [NMusers] RE: Standard errors of estimates for strictly positive parameters

), but for intermediate steps or models with multi-day runs, SEs are very helpful and sufficiently reliable. Thanks Leonid -- Leonid Gibiansky, Ph.D. President, QuantPharm LLC web:www.quantpharm.com e-mail: LGibiansky at quantpharm.com tel:(301) 767 5566

Re: [NMusers] Genotype data missing in some individuals

the estimate of the PK parameter for missing level is somewhere between the estimates for NO and YES levels, closer to the value for the level with higher prevalence in your dataset. Regards, Leonid -- Leonid Gibiansky, Ph.D. President, QuantPharm LLC web

Re: [NMusers] parallel computing

Mark, I reproduced the setup and your file is running fine on my side (after we switched off all the firewalls) Thanks for your help! Leonid -- Leonid Gibiansky, Ph.D. President, QuantPharm LLC web:www.quantpharm.com e-mail: LGibiansky at quantpharm.com

[NMusers] parallel computing

Dear All, We cannot force Nonmem parallel to run on two Windows 7 computers. If anybody was able to do it (on Windows machines, with Windows 7 systems) could you share the pnm file? Thanks! Leonid -- Leonid Gibiansky, Ph.D. President, QuantPharm LLC web

Re: [NMusers] Inflated random effects showed by VPC

they have high CWRES but due to some timing or dosing errors that could be obvious from looking on the plots) Leonid -- Leonid Gibiansky, Ph.D. President, QuantPharm LLC web:www.quantpharm.com e-mail: LGibiansky at quantpharm.com tel:(301) 767 5566 On 9

Re: [NMusers] [mixture models] assign individual to a subpopulation every dosing record?

-- Leonid Gibiansky, Ph.D. President, QuantPharm LLC web:www.quantpharm.com e-mail: LGibiansky at quantpharm.com tel:(301) 767 5566 On 8/27/2014 12:21 PM, Jiang, Yu wrote: Dear Lenonid, Thank you for your suggestion! That is very helpful. But I am

Re: [NMusers] [mixture models] assign individual to a subpopulation every dosing record?

one population (same population KA for all subjects) but allow high inter-occasion variability. Leonid -- Leonid Gibiansky, Ph.D. President, QuantPharm LLC web:www.quantpharm.com e-mail: LGibiansky at quantpharm.com tel:(301) 767 5566 On 8/26/2014

[NMusers] Parallel Nonmem of Intel Xeon Phi Coprocessor

software may or may not work as is. Thanks! Leonid -- Leonid Gibiansky, Ph.D. President, QuantPharm LLC web:www.quantpharm.com e-mail: LGibiansky at quantpharm.com tel:(301) 767 5566

Re: [NMusers] integrated parent-metabolite PK model from sequential iv and oral doses of parent drug

-- Leonid Gibiansky, Ph.D. President, QuantPharm LLC web:www.quantpharm.com e-mail: LGibiansky at quantpharm.com tel:(301) 767 5566 On 2/17/2014 3:22 AM, Seng Kok Yong wrote: Dear fellow NMusers, I'm trying to develop an integrated parent-metabolite PK model

Re: [NMusers] Question: FO VS. FOCE VS. FOCE-INTER in POSTHOC 2014-1-3

-- Leonid Gibiansky, Ph.D. President, QuantPharm LLC web:www.quantpharm.com e-mail: LGibiansky at quantpharm.com tel:(301) 767 5566 On 1/6/2014 6:53 AM, 赵赵 wrote: Dear Dr Leonid， Thanks so much! Your answer gave me a very clear direction of what to do

Re: [NMusers] Question: FO VS. FOCE VS. FOCE-INTER in POSTHOC 2014-1-3

or RMSE that are more or less useless in identifying the direction of the bias (if you have any differences with the literature models). Leonid -- Leonid Gibiansky, Ph.D. President, QuantPharm LLC web:www.quantpharm.com e-mail: LGibiansky at quantpharm.com

Re: [NMusers] Getting rid of correlation issues between CL and volume parameters

, it could be better to use more mechanistically relevant model and put the variability where it would be expected from the mechanistic point of view. Regards, Leonid -- Leonid Gibiansky, Ph.D. President, QuantPharm LLC web:www.quantpharm.com e-mail: LGibiansky

Re: [NMusers] Getting rid of correlation issues between CL and volume parameters

()*EXP(ETA())/FF1 but not F1=EXP(ETA(1)) CL=THETA()*EXP(ETA())/F1 V=THETA()*EXP(ETA())/F1 Leonid -- Leonid Gibiansky, Ph.D. President, QuantPharm LLC web:www.quantpharm.com e-mail: LGibiansky at quantpharm.com tel:(301) 767 5566 On 11/22/2013 12:14

Re: [NMusers] 2 cmax after a single SC dose

Is this a simulation run? May be residual error? I never seen integration problem to result in incorrect profiles. Also check the data file, may be extra dose was given? Leonid On Nov 2, 2013, at 8:01 PM, non...@optonline.net wrote: Hello NONMEM Users, NONMEM outputs for few

Re: [NMusers] Change of NSIG or R matrix

of point of views on this subject :) Leonid -- Leonid Gibiansky, Ph.D. President, QuantPharm LLC web:www.quantpharm.com e-mail: LGibiansky at quantpharm.com tel:(301) 767 5566 On 10/22/2013 4:17 AM, Xinting Wang wrote: Dear Nick, Thank you very much

Re: [NMusers] IV and SC injection

Justus This looks OK except you need to assign F1=1 for IV, so it should be F1=1 IF(ROUT.EQ.SC) F1=THETA(4) where ROUT is a covariate that is equal to SC for SC administration subjects or doses. Leonid -- Leonid Gibiansky, Ph.D. President, QuantPharm LLC

Re: [NMusers] Change of NSIG or R matrix

agreement with the bootstrap CI, but it may depend on the problem. Leonid -- Leonid Gibiansky, Ph.D. President, QuantPharm LLC web:www.quantpharm.com e-mail: LGibiansky at quantpharm.com tel:(301) 767 5566 On 10/8/2013 3:57 AM, Xinting Wang wrote: Dear

Re: [NMusers] Simulations with OMEGA BLOCK

It looks like a bug (or feature). Nonmem can handle $OMEGA BLOCK(2) 1 1 1 but fails on $OMEGA BLOCK(2) 1 0 0 although conceptually these are identical problems Leonid -- Leonid Gibiansky, Ph.D. President, QuantPharm LLC web:www.quantpharm.com e-mail

Re: [NMusers] PopED and SSE comparison

it be divided by the parameter value? Leonid -- Leonid Gibiansky, Ph.D. President, QuantPharm LLC web:www.quantpharm.com e-mail: LGibiansky at quantpharm.com tel:(301) 767 5566 On 10/8/2013 10:50 AM, pavan kumar wrote: Hi, I have been working

Re: AW: Re: [NMusers] Parameter Estimation in IF Conditioning Statement

(different) while for the second model they are equal to SLOPE = THETA(3)+ETA(2) SLOPE = THETA(3)+ETA(2) and equal to each other Leonid -- Leonid Gibiansky, Ph.D. President, QuantPharm LLC web:www.quantpharm.com e-mail: LGibiansky at quantpharm.com tel

Re: [NMusers] Covariate model building with SAEM andIMP

where root is the name of the control stream, you will find there the OBJ value and SD (averaged over the iterations). Those values can be used for model comparison. Leonid -- Leonid Gibiansky, Ph.D. President, QuantPharm LLC web:www.quantpharm.com e

[NMusers] Workshop on PK and PD Modeling Biologics in Baltimore, MD

modeling are provided to the participants. More details can be found here: http://www.quantpharm.com/Workshop.html The link below contains registration details: http://www.iconplc.com/news-events/events/workshops/a-1-day-workshop-on-model/index.xml Thanks! Leonid -- Leonid Gibiansky, Ph.D

[NMusers] Workshop on PK and PD Modeling Biologics in Baltimore, MD

. If you are interested to combine TMDD workshop with Nonmem worskops, you can review those and register here: http://www.iconplc.com/news-events/events/workshops/ Thanks! Leonid -- Leonid Gibiansky, Ph.D. President, QuantPharm LLC web

Re: [NMusers] Reducing ETAs actually decreased OFV

-- Leonid Gibiansky, Ph.D. President, QuantPharm LLC web:www.quantpharm.com e-mail: LGibiansky at quantpharm.com tel:(301) 767 5566 On 8/10/2013 10:23 PM, Xinting Wang wrote: Dear all, Does anyone witnessed such a phenomenon in NONMEM as when you reduced an ETA

Re: [NMusers] if-the-statement for 3 class categorical covariate

It is not a good idea to use enclosed IF loops. Use CODE1=0 IF(GENE.EQ.1) CODE1=1 CODE4=0 IF(GENE.EQ.4) CODE4=1 CL=(CODE1*THETA(1)+...+CODE4*THETA(4))*EXP(ETA(1)) Leonid -- Leonid Gibiansky, Ph.D. President, QuantPharm LLC web:www.quantpharm.com e

Re: [NMusers] PKPD-simulations

be at least 6 (if at all possible: could be possible with ADVAN13) Leonid -- Leonid Gibiansky, Ph.D. President, QuantPharm LLC web:www.quantpharm.com e-mail: LGibiansky at quantpharm.com tel:(301) 767 5566 On 7/24/2013 3:29 PM, markus joerger wrote: dear

Re: [NMusers] MU referencing

) Param1 = EXP(MU_1+ETA(1)) Param = Param1*EXP(ETA(2)*G2) I would also try correlated ETA(1) and ETA(2), and I wonder whether they will be estimated as collinear. Leonid -- Leonid Gibiansky, Ph.D. President, QuantPharm LLC web:www.quantpharm.com e-mail

Re: [NMusers] Mixture model simulation

should it be IF(MIXEST.EQ.2) Z=0 for the fitting run? -- Leonid Gibiansky, Ph.D. President, QuantPharm LLC web:www.quantpharm.com e-mail: LGibiansky at quantpharm.com tel:(301) 767 5566 On 5/7/2013 11:31 AM, Paul Hutson wrote: Dear Users: I note

Re: [NMusers] Mixture model simulation

Well, it was the wrong guess, MIXNUM should work -- Leonid Gibiansky, Ph.D. President, QuantPharm LLC web:www.quantpharm.com e-mail: LGibiansky at quantpharm.com tel:(301) 767 5566 should it be IF(MIXEST.EQ.2) Z=0 for the fitting run? On 5/7/2013

[NMusers] PAGE Satellite Workshop: Modeling Biologics with Target-Mediated Disposition

places available as we were able to find a larger room. Also a sufficient number of industry participants registered, so we are lifting restrictions on the number of student (discount registration) places. Thanks Leonid -- Leonid Gibiansky, Ph.D

Re: [NMusers] seeking help on NONMEM code for simulation of Repeated Time to Event Data

in your scale but preferably large relative to the integration steps) and P=DOSE/duration. Not straightforward but doable Leonid -- Leonid Gibiansky, Ph.D. President, QuantPharm LLC web:www.quantpharm.com e-mail: LGibiansky at quantpharm.com tel

Re: [NMusers] seeking help on NONMEM code for simulation of Repeated Time to Event Data

(where T1 is known in advance)? Leonid -- Leonid Gibiansky, Ph.D. President, QuantPharm LLC web:www.quantpharm.com e-mail: LGibiansky at quantpharm.com tel:(301) 767 5566 On 4/3/2013 4:35 PM, Yaming Hang wrote: Dear NONMEM Users, I have some questions

Re: [NMusers] ACoP 2013 - Don't Dilly Dally

Not to diminish the significance of ACoP, but there are other conferences (PAGE, WCoP, PKUK) that are also 100% dedicated to furthering the emerging scientific discipline of pharmacometrics -- Leonid Gibiansky, Ph.D. President, QuantPharm LLC web

[NMusers] QuantPharm workshops for 2013

can be found in any of the following links: http://www.meetingmakers.co.uk/userfiles/file/PAGE%202013%20Satellite%20Workshop%20PDF.pdf http://www.quantpharm.com/Workshop.html http://www.meetingmakers.co.uk/page-satellite-workshop.asp Thanks Leonid -- Leonid

Re: [NMusers] Additive residual error

). I would try to run the initial model with NOTHETABOUNDTEST NOOMEGABOUNDTEST NOSIGMABOUNDTEST options. Leonid -- Leonid Gibiansky, Ph.D. President, QuantPharm LLC web:www.quantpharm.com e-mail: LGibiansky at quantpharm.com tel:(301) 767 5566

Re: [NMusers] how to model blood volume change during and after hemodialysis?

Nele, You can use T in $DES block if you use ADVAN6, 8, 9, or 13 and write you system in differential equations Leonid -- Leonid Gibiansky, Ph.D. President, QuantPharm LLC web:www.quantpharm.com e-mail: LGibiansky at quantpharm.com tel:(301) 767

Re: [NMusers] Minimisation problem...

but if there is any trend, it should be clearly visible on the plot. Leonid -- Leonid Gibiansky, Ph.D. President, QuantPharm LLC web:www.quantpharm.com e-mail: LGibiansky at quantpharm.com tel:(301) 767 5566 On 1/9/2013 5:19 AM, Gavin Jarvis wrote: Dear

[NMusers] MPI question

to reproduce it on his side, but he helped to pin-point the blame on the MPI since FPI runs fine on the same runs. Has anybody else seen this problem, and if yes, were you able to fix it? Thanks! Leonid -- Leonid Gibiansky, Ph.D. President, QuantPharm LLC web

Re: [NMusers] capecitabine PopPK

-- Leonid Gibiansky, Ph.D. President, QuantPharm LLC web:www.quantpharm.com e-mail: LGibiansky at quantpharm.com tel:(301) 767 5566 On 12/15/2012 3:24 AM, markus joerger wrote: dear NMUSERS, I am presently working on a capecitabine model (n=12, increasing levels

Re: [NMusers] Different EBE estimation between original and enriched dataset with MDV=1

-- Leonid Gibiansky, Ph.D. President, QuantPharm LLC web:www.quantpharm.com e-mail: LGibiansky at quantpharm.com tel:(301) 767 5566 On 11/27/2012 1:59 PM, pascal.gir...@merckgroup.com wrote: Hi Leonid, Thanks for the additional suggestion to use ADVAN13. I was able

Re: [NMusers] Different EBE estimation between original and enriched dataset with MDV=1

Hi Pascal, You may want to switch to ADVAN13. It is much more stable for stiff problems, and may allow to increase TOL. Thanks Leonid -- Leonid Gibiansky, Ph.D. President, QuantPharm LLC web:www.quantpharm.com e-mail: LGibiansky at quantpharm.com tel

Re: [NMusers] restart NONMEM

Actually, it is useful, we did is many times (but then got a better UPS :) ) Leonid On 8/14/2012 12:37 PM, non...@optonline.net wrote: Hello Everyone, It seems like the $MSFI is not useful if the NONMEM job crash due to, for example, power outage. Are there any other way to resturt the

Re: [NMusers] Modeling targeted mediated drug disposition using Quasi-equilibrium model

, see http://www.page-meeting.org/default.asp?abstract=1595 Leonid -- Leonid Gibiansky, Ph.D. President, QuantPharm LLC web:www.quantpharm.com e-mail: LGibiansky at quantpharm.com tel:(301) 767 5566 On 7/6/2012 3:30 PM, Wang, Xiaofeng wrote: Dear

Re: [NMusers] Time after dose

to the reference dose that you would like to use). Leonid -- Leonid Gibiansky, Ph.D. President, QuantPharm LLC web:www.quantpharm.com e-mail: LGibiansky at quantpharm.com tel:(301) 767 5566 On 7/5/2012 12:16 PM, siwei Dai wrote: Hi, Everyone: I am having

Re: [NMusers] Log transformation of both sides

this error model inflates variance too strongly (at low TY values). Then something like EMAX error model in logs can help: W = THETA() - THETA()*TY/(THETA()+TY) Y = LOG(TY) + W*EPS(1) ; $SIGMA 1 FIXED Leonid -- Leonid Gibiansky, Ph.D. President

Re: [NMusers] different parameterizations of OMEGA matrix vs. chance of getting flip-flop estimates

(ETA2)] (0,0.316) ; 7 [THETA7, IIV ON KA, SD(ETA3)] Leonid -- Leonid Gibiansky, Ph.D. President, QuantPharm LLC web:www.quantpharm.com e-mail: LGibiansky at quantpharm.com tel:(301) 767 5566 On 6/22/2012 12:36 PM, Yaming Hang wrote: Dear NONMEM

Re: [NMusers] VPC results using PsN and Xpose

Toufigh It would help to see the plot. One possibility is that the plot is in the log scale, and you have additive error component that plays larger role at low concentrations. Leonid -- Leonid Gibiansky, Ph.D. President, QuantPharm LLC web

Re: [NMusers] modeling of total concentration of two drugs with different kinetics in NONMEM

not be discussed in general, it is specific to each problem. Good example is monoclonal antibodies where you have total antibody concentration measured while the blood contains free antibody + antibody bound to the target. Leonid -- Leonid Gibiansky, Ph.D

Re: [NMusers] Parallel first order and Michaelis-Menten elimination

should post messages from the address registered in the list. If you changed the address, it needs to be reflected on the server. I copied the nmusers, this reply will appear on the list. Regards, Leonid -- Leonid Gibiansky, Ph.D. President, QuantPharm LLC web

Re: [NMusers] NONMEM compiler

-- Leonid Gibiansky, Ph.D. President, QuantPharm LLC web:www.quantpharm.com e-mail: LGibiansky at quantpharm.com tel:(301) 767 5566 On 3/15/2012 6:47 PM, Adams, Jeb wrote: My concerns with the Polyhedron website’s numbers are the use of gfortran 4.1.2 which was published in February of 2007

Re: [NMusers] NONLINEAR PK MODEL ERROR

possible explanation is ALAG1 use: if the first observation is before ALAG1 time, you will get zero prediction (and this error) Thanks Leonid -- Leonid Gibiansky, Ph.D. President, QuantPharm LLC web:www.quantpharm.com e-mail: LGibiansky at quantpharm.com tel

Re: [NMusers] Output EPS(1) after an $EST step?

The only way that I know is to use SD=SQRT(IPRED**2*THETA(10)**2+THETA(11)**2) Y=IPRED+SD*EPS(1) RES=DV-IPRED IWRES = RES/SD ; same as EPS(1) $SIGMA 1 FIX Leonid -- Leonid Gibiansky, Ph.D. President, QuantPharm LLC web:www.quantpharm.com e-mail

Re: Fwd: Re: [NMusers] Predicting Drug in Tissue A2 using MAXEVAL=0

-- Leonid Gibiansky, Ph.D. President, QuantPharm LLC web:www.quantpharm.com e-mail: LGibiansky at quantpharm.com tel:(301) 767 5566 On 1/13/2012 1:43 PM, Paul Hutson wrote: Thank you, Sebastien. Moving A2 and A3 to the $ERROR block still gives me

Re: [NMusers] Memory problems with Xpose

-- Leonid Gibiansky, Ph.D. President, QuantPharm LLC web:www.quantpharm.com e-mail: LGibiansky at quantpharm.com tel:(301) 767 5566 On 1/13/2012 10:53 AM, Toufigh Gordi wrote: Hi Justin (and others), My computer has 3GB, running Windows 7 on a 32 bit machine

Re: [NMusers] Bootstrap in combination with PRIOR?

. Regards, Leonid -- Leonid Gibiansky, Ph.D. President, QuantPharm LLC web:www.quantpharm.com e-mail: LGibiansky at quantpharm.com tel:(301) 767 5566 On 12/22/2011 7:58 AM, Brogren Jacob wrote: Dear nmusers, Merry Holiday! (you may change

Re: [NMusers] CycleCloud BigScience Challenge giving away ~8-hours on 30000 core cluster for research

was defined as 100%*(single CPU run time)/(multiple CPU run time)/(number of processors) Roughly, the model run on 11 processors was 10 times faster than the single-processor run of the same model Leonid -- Leonid Gibiansky, Ph.D. President, QuantPharm LLC

Re: [NMusers] Delayd Cmax following infusion of a monoclonal antibody

-- Leonid Gibiansky, Ph.D. President, QuantPharm LLC web:www.quantpharm.com e-mail: LGibiansky at quantpharm.com tel:(301) 767 5566 On 10/25/2011 11:09 AM, fabr...@arlenda.com wrote: Dear NMUsers, Some pharmacokinetic data of a monoclonal antibody (IGG1 like

Re: [NMusers] PRIOR method without covariance matrix of estimates?

. Still, each particular case should be approached individually, I would not rule out any of the approaches (priors vs combining the data) without knowing details of the specific case. Thanks Leonid -- Leonid Gibiansky, Ph.D. President, QuantPharm LLC web

Re: [NMusers] Epsilon shrinkage and IWRES

non-zero IPREDi. -- Leonid Gibiansky, Ph.D. President, QuantPharm LLC web:www.quantpharm.com e-mail: LGibiansky at quantpharm.com tel:(301) 767 5566 On 9/22/2011 9:26 AM, Rik Schoemaker wrote: Dear all, Can someone enlighten me on a NONMEM

Re: [NMusers] Epsilon shrinkage and IWRES

Hi Andy, Could you, please, provide an example of the model where Nonmem computations are wrong? In my limited experience of comparison, they always agree or very close to what I compute via IWRES. Thanks Leonid -- Leonid Gibiansky, Ph.D. President

Re: [NMusers] analysis of non-positive DV

the model that produces only the positive productions. In this case, negative values will be treated as a random noise (you need to have additive error component in this case), e.g.,: Y=EFF+EPS(1) or Y=EFF*(1+EPS(1))+EPS(2) Thanks Leonid -- Leonid Gibiansky

Re: [NMusers] Confidence intervals of PsN bootstrap output

. Regards, Leonid -- Leonid Gibiansky, Ph.D. President, QuantPharm LLC web:www.quantpharm.com e-mail: LGibiansky at quantpharm.com tel:(301) 767 5566 On 7/11/2011 1:37 AM, Nick Holford wrote: Leonid, With regard to discarding runs at the boundary

Re: [NMusers] Confidence intervals of PsN bootstrap output

to push to the parameter estimates that we can accept, or change the bootstrap procedure (add stratification by covariates, by dose level, by route of administration, etc.) so that all data sets behave similarly. Leonid -- Leonid Gibiansky, Ph.D. President

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

-- Leonid Gibiansky, Ph.D. President, QuantPharm LLC web:www.quantpharm.com e-mail: LGibiansky at quantpharm.com tel:(301) 767 5566 On 6/2/2011 11:44 AM, mdkz...@aol.com wrote: All: I have a data set following a constant rate 1-hour infusion where the time of 1-hour sample

Re: [NMusers] simulation problem or bug

WITH OTHER INFORMATION IN THE CONTROL STREAM AND INPUT MSF The original problem ended with the rounding error 134; it looks like the simulation step does not like it. Is this the indended behaviour? Thanks Leonid -- Leonid Gibiansky, Ph.D. President, QuantPharm LLC

Re: [NMusers] simulation problem or bug

Matt, I was able to specify parameters explicitly and run simulations. So my immediate problem is solved. I am still unsure what is the problem with the MSF run. Thanks Leonid -- Leonid Gibiansky, Ph.D. President, QuantPharm LLC web:www.quantpharm.com

[NMusers] simulation problem or bug

step (with UNCONDITIONAL option) Any ideas of what is the problem? Thanks! Leonid -- -- Leonid Gibiansky, Ph.D. President, QuantPharm LLC web:www.quantpharm.com e-mail: LGibiansky at quantpharm.com tel:(301) 767 5566

Re: [NMusers] Modeling Cmin and Tmin

on the last row for each individual in mytab -- Leonid Gibiansky, Ph.D. President, QuantPharm LLC web:www.quantpharm.com e-mail: LGibiansky at quantpharm.com tel:(301) 767 5566 On 4/6/2011 11:00 AM, Martin Bergstrand wrote: Dear Friederike, Below

Re: [NMusers] Problems with PD Modelling

rather than curves in these plots this is an indication of the time delay that need to be accounted for either by effect compartment model or indirect response model. Hope this helps Leonid -- Leonid Gibiansky, Ph.D. President, QuantPharm LLC web

Re: [NMusers] Problems with PD Modelling

. Regards Leonid -- Leonid Gibiansky, Ph.D. President, QuantPharm LLC web:www.quantpharm.com e-mail: LGibiansky at quantpharm.com tel:(301) 767 5566 On 2/11/2011 10:35 AM, xin yi wrote: Hi all, I'm new to nonmem and would be grateful for some pointers

Re: [NMusers] Inclusion of Analytical Expressions in NONMEM control file

/3/2011 12:39 PM, Leonid Gibiansky wrote: you can use ADNVAN9 $AES (see manual) although it is much better (quicker and more stable) to solve them (if possible) analytically. Leonid -- Leonid Gibiansky, Ph.D. President, QuantPharm LLC web: www.quantpharm.com e

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

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 than 4 Gb of RAM. Leonid -- Leonid Gibiansky, Ph.D. President, QuantPharm LLC web:www.quantpharm.com e-mail: LGibiansky at quantpharm.com

Re: [NMusers] outsourcing PK/PD analysis - help wanted

I am sure, ours is the best one around :) www.quantpharm.com -- Leonid Gibiansky, Ph.D. President, QuantPharm LLC web:www.quantpharm.com e-mail: LGibiansky at quantpharm.com tel:(301) 767 5566 On 1/6/2011 10:59 AM, non...@optonline.net wrote

Re: [NMusers] RE: [NMusers] Zähneputzen VOR oder NACH dem Frühstück? What comes fir st? BSV, BOV, or covariates?

of the inter-occasion variability ETAs: if the model is correct, they should be centered (for each occasion). Thanks Leonid -- Leonid Gibiansky, Ph.D. President, QuantPharm LLC web:www.quantpharm.com e-mail: LGibiansky at quantpharm.com tel:(301) 767 5566

Re: [NMusers] Predictions beyond SS dosing time + II

need to add dose, and this dose should be additional (regular, not steady-state) dose, same as SS dose. Leonid -- Leonid Gibiansky, Ph.D. President, QuantPharm LLC web:www.quantpharm.com e-mail: LGibiansky at quantpharm.com tel:(301) 767 5566 On 11

Re: [NMusers] Hessian of posterior density is non positive definite during search

-- Leonid Gibiansky, Ph.D. President, QuantPharm LLC web:www.quantpharm.com e-mail: LGibiansky at quantpharm.com tel:(301) 767 5566 On 11/1/2010 11:42 AM, Ann Rigby-Jones wrote: Dear Matt All I’m still battling I’m afraid… Can’t seem to get past

Re: [NMusers] Very big NONMEM

Just out of curiosity, what type of problem will require 100K subjects? If this is parametric, 15K should be sufficient to describe any number of normal-type distributions. Is this a non-parametric model to catch a very rare events? Thanks Leonid -- Leonid

[NMusers] bug list

steps from the previously estimated model), but I cannot find what was the problem and whether it was fixed. Please, confirm Thanks Leonid -- -- Leonid Gibiansky, Ph.D. President, QuantPharm LLC web:www.quantpharm.com e-mail: LGibiansky at quantpharm.com

Re: [NMusers] Negative eigenvalues, over-paramterization, finding most sensitive parameter

to describe the entire range of available data, one can use this model until some experimental results provide the data (and the need) to free and estimate those fixed parameters. Thanks Leonid -- Leonid Gibiansky, Ph.D. President, QuantPharm LLC web

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