This is a generic error message, nothing informative except indicates
that there are some numerical problems.
You can try to change ADVAN (6 to 13, if this is differential equations
model) or TOL on $SUBR record, SIGL and NSIG on $EST, change initial
conditions to the values of the previous m
I would concentrate on improving the model: FOCEI should be fine (unless
you would like to use random effect on the lag time: then may not work
well). Some options to improve absorption part are the time-variable KA
(implemented using MTIME option) or sequential zero-order then first
order abso
It can be done if you add extra $cov statement after each estimation method
record
Thank you
Leonid
On Sat, Jul 27, 2024, 12:47 PM wrote:
> Dear Santosh,
>
>
>
> There is a good reason for this. Wald (1943) has shown that the inverse
> of the Hessian (R matrix) evaluated at the maximum likelih
ere is no steady state in urine. Urine is always accumulating and
empty out. You can set ss to the central compartment. After setting
ss to the central compartment, you need to empty and reset urine
compartment using evid.
On Thu, Jul 11, 2024, 2:10 AM Leonid Gibiansky
mailt
Could you show the code and the data sample?
It is possible that urine compartment does not have SS, as it does not
have elimination. It needs to be emptied time to time, and it could be
difficult to code SS of this system. To check, you may look on the urine
compartment concentrations with ad
For CV, look for "geometric CV" here:
https://en.wikipedia.org/wiki/Coefficient_of_variation
(Sln^2 in Nonmem OMEGA).
Or you can use simpler (but approximate) expression
CV%=100*SQRT(OMEGA).
For RSE, not sure. Nonmem reports OMEGA SE that can be used to compute
OMEGA CI (confidence intervals)
Hi Yun,
LSODA messages are not very informative or specific. They just tell that
the model has numerical problems. You may try to start with the new
initial conditions (e.g., divide all CL and V initial parameter values
by 0.9) and/or change TOL value to the lower value (8 or 9?).
Thank you,
e the following:
AN ERROR WAS FOUND IN THE CONTROL STATEMENTS.
585 LAPLACIAN METHOD IS REQUIRED WHEN YLO, YUP, CTLO, OR CTUP IS USED.
fsubs did not get created by NM-TRAN. No NONMEM execution. "
On 3/23/2024 11:40 PM, Leonid Gibiansky wrote:
Hi Mohd,
Something else is going on, your code ru
Hi Mohd,
Something else is going on, your code runs fine on my side except you
need to define LLOQ, and also correct an error in SD:
SD = SQRT(1 + THETA(4)*F**2) ; not **F
Why you call it VPC, are you running it via PSN or similar interface?
Then the problem can be there, in transformation of
= VAR1 + 2*COV(ERR1,ERR2),
where COV(ERR1,ERR2) = THETA1*IPRED*THETA2 which means CORR(ERR1,ERR2)=1.
Ken
*From:* Luann Phillips
*Sent:* Tuesday, March 5, 2024 5:38 PM
*To:* kgkowalsk...@gmail.com; 'Leonid Gibiansky'
; 'T. Preijers' ;
nmusers@globomaxnm.com
*Subject:* R
Hi Tim and Ken,
I do not think this is an error to code W = THETA(1) * IPRED + THETA(2).
This does not correspond to the variance of
VAR1=(THETA(1)*IPRED)^2+THETA(2)^2
but this is just a different dependence of variance
VAR2=(THETA(1)*IPRED+THETA(2))^2 = VAR1+2*THETA(1)*IPRED*THETA(2)
o
Most likely, the parameter was reduced to the internal bound. Nonmem
places the low bound equal to 1/100 (or 1/1000) of the initial value
even if it is set to zero in the code. You may rerun with lower value of
THETA(2) or put NOSIGMABOUND to the estimation record
Leonid
THETABOUNDTEST, OMEGA
type = "typo", something similar is in the control stream where Q is
defined
Leonid
On 1/26/2024 10:16 AM, Leonid Gibiansky wrote:
most likely, some type in the code. Can you provide the control stream?
On 1/26/2024 10:01 AM, Elashkar, Omar I. wrote:
ERROR IN TRANS4 ROUTINE
most likely, some type in the code. Can you provide the control stream?
On 1/26/2024 10:01 AM, Elashkar, Omar I. wrote:
ERROR IN TRANS4 ROUTINE
The only way I know to simulate with residual variability is to use
$SIM SIMONLY
If ETAs need to be fixed, they have to be in the data file
$INPUT ,PKETA1,
CL=THETA(1)*EXP(PKETA1+0*ETA(1))
--
another option is to use mrgsolve or similar R packages (after reading
in estimated ETA values).
--
Looks like a bug.
Workaround is to use a very small diagonal value (1E-30)
Leonid
On 7/6/2023 6:01 AM, Philip Harder Delff wrote:
Hi all,
I am trying to specify a full OMEGA matrix for simulation purpose. I get
issues because some diagonals are zero and some are positive. If I write
$OMEGA B
For simulation, you can remove bql part, and simulate from the model.
Simulated values below lloq can be treated as bqls, if you e.g. want to
compare fraction of bqls in observed and simulated sets.
Leonid
On Mon, Jun 19, 2023, 3:57 AM Hiba Sliem wrote:
> Hello everyone
>
> I have a simple ques
k you again
regards
-----Original Message-
From: Leonid Gibiansky
Sent: Tuesday, 30 May 2023 04:17
To: Hiba Sliem
Cc: nmusers
Subject: Re: [NMusers] Problem with estimating sigma when using M3 method
The code is incorrect, $ERROR should be
$ERROR
LOQ=0.1
IPRED = F
W1 = THETA(8
Original Message-
From: Philip Harder Delff
Sent: Friday, 26 May 2023 21:42
To: Leonid Gibiansky
Cc: Hiba Sliem ; nmusers
Subject: Re: [NMusers] Problem with estimating sigma when using M3 method
[You don't often get email from phi...@delff.dk. Learn why this is important at
https://ak
nt periods,
is it possible the issue comes from my dataset?
Regards
-Original Message-----
From: Leonid Gibiansky
Sent: Friday, 26 May 2023 14:51
To: Hiba Sliem ; nmusers@globomaxnm.com
Subject: Re: [NMusers] Problem with estimating sigma when using M3 method
[You don't often get ema
you should fix
$SIGMA
1 FIX
as you are already estimating the SD using THETA(8).
Leonid
On 5/26/2023 4:57 AM, Hiba Sliem wrote:
Hello
I’m fairly new to nonmem, I’m currently trying to model a phase 1 study
with BLQ values, while the run was successful with no error message, my
residual err
Hi Bob,
Thanks for the instructions, it is very helpful. From the practical
standpoint, using gamma as you described is somewhat complicated while
using square-normal is trivial. Would it be a fair summary to say that:
-if the results of log-normal and square are similar (or if log-normal
is
This should do it:
OM12 = OMEGA(1,2)
$TAB OM12
On 12/20/2022 1:55 PM, Paul Hutson wrote:
Is it possible to include the off-diagonal correlation of ETAs in the
$TABLE output? If so, how is it done? ETAR12 is not recognized.
I’d like to import into R for summary stats.
Thank you!
Paul
Paul R
Is it is only CL (then you can just use SE and normal distribution) or
you need predictions and use whole parameter matrix (then you need to
use PRIORS): make sure to set TRUE=PRIOR on the simulation step).
Leonid
Roughly (See guide for IVAR value):
$PRIOR TNPRI (PROBLEM 2) IVAR=2 PLEV=0.999
from the manual:
Iteration -13 indicates that this line contains the condition
number , lowest, highest, Eigen values of the correlation matrix of the
variances of the final parameters.
On 11/29/2022 7:59 PM, Ken Kowalski wrote:
Hi Matt,
I’m pretty sure Stu Beal told me many years
t.ba...@iconplc.com <mailto:robert.ba...@iconplc.com>
www.iconplc.com <http://www.iconplc.com>
-Original Message-
From: owner-nmus...@globomaxnm.com <mailto:owner-nmus...@globomaxnm.com>
On Behalf Of Leonid Gibiansky
Sent: Friday, September 16, 2022 12:57 PM
To: nmuse
Hi Nick and Bob,
There was a thread in 2010 about LINV1PD: 129 error, see below.
Is it possible to get ID(s) of the subject(s) with the problem or
extract any other useful information to debug the issue? I am using
ADVAN5 with LAPLACIAN option (with PROTECT), are there any tricks that
would he
With flip-flop, we always can get 2 solutions (assuming 1-cmpt model
with absorption; 2-cpt case is similar but expressions may differ):
ka1-CL-V1 and ka2-CL-V2 such that
ka1=CL/V2 and ka2=CL/V1
Note that CL is the same, so info on CL will not help to distinguish
these cases.
One cannot jus
Hi Roeland,
ERROR_TERM in Y and in DUM should differ: one should include EPS() while
the other should use only SD. F_FLAG should be set to zero outside M3
block. What is DRUG.EQ.1, is it parent? there should be a separate M3
part for metabolite.
It would be easier to debug if you would provi
/1faVr5vwt9KNyxdxJw9IXB6VZkeRFxg_QHad8-o1wfKw/edit?usp=sharing
Leonid
On 7/24/2022 2:36 PM, Leonid Gibiansky wrote:
Hi All,
I planned to put a summary in a week, but I see that the stream of
responses dwindle, so we can have some summaries now (BTW, if you know
colleagues who do not use nmusers but attended
Hi All,
I planned to put a summary in a week, but I see that the stream of
responses dwindle, so we can have some summaries now (BTW, if you know
colleagues who do not use nmusers but attended PAGE and would be willing
to participate in a survey, could you forward this email to them).
Summary
Hi All,
I got back from PAGE with COVID, and I know several people who got the
same. I suspect that there are many people who got it, but it would be
interesting to put a number on it. Attached is the google doc that
everyone can edit. Could you put an X to the appropriate column(s):
Not test
one can do it by hands, like set F1=1 and then use
DA1/dt = -KA*A(1)
DA2/dt = FF1(any function of time)*A(1) ..
will it do the trick?
Leonid
On 8/6/2021 4:20 PM, Robin Michelet wrote:
Hi Bill,
Thank you for your quick answer. As far as I understand Nonmem's inner
workings, bio availability
stant Research
Pharmacy Department
Institute of Pharmacy and Food,
University of Havana
Cuba
El 22/07/2021 16:04, "Leonid Gibiansky" <mailto:lgibian...@quantpharm.com>> escribió:
Definition of CL should be moved inside the DES block; other than
that, looks fine:
;
Definition of CL should be moved inside the DES block; other than that,
looks fine:
; DES --
$DES
CL2_TIME = CL2*EXP(-KDES*T)
CL_TOTAL = CL2_TIME + CL1 ; total clearance
...
Thanks
Leonid
On 7/22/2021 3:30 PM, Niurys.CS wrote:
Dear nmusers,
I'm working on the pharmacokinetics of an an
yes, it does at estimation, not sure about simulations step.
If you need true exponential error, log-transform of DV and model
predictions is needed
Leonid
On 7/19/2021 11:34 AM, Guidi Monia wrote:
Dear colleagues,
We would like to compare the NONMEM predictions with those obtained by a
Ba
, 2021 6:17 PM
To: Bonate, Peter ; Leonid Gibiansky
; Niurys.CS
Cc: nmusers@globomaxnm.com
Subject: RE: [NMusers] Assessment of elimination half life of mAb
Hi Pete,
I agree that it is hard to communicate. I like the general idea of C90 you propose. I tend
to choose something in between your
go
into this topic in any depth.
Best,
Niurys
El 28/04/2021 19:34, "Leonid Gibiansky" <mailto:lgibian...@quantpharm.com>> escribió:
There is no such thing as half-life of elimination for the nonlinear
drug. But one can compute something like half-life:
1. Half
There is no such thing as half-life of elimination for the nonlinear
drug. But one can compute something like half-life:
1. Half-life of the linear part (defined by CL, V1, V2, Q): this defines
the half-life at high doses/high concentrations when nonlinear
elimination is saturated.
2. Washo
it is hard to check without seeing the data. Could you post sample data
for 1 subject?
Leonid
On 2/11/2021 11:51 PM, Andre Jackson wrote:
I have the following code for the zero order followed by 1^st order
delayed absorption of a drug with complex absorption. This code is for
a two way crosso
not sure the code is correct for 3 days case
As written, it assumes that FDAY1=0.5, FDAYS2=1/4, FDAYS3=1/4 (on average)
Possible way to code this type of fractions is
FF2=THETA()*EXP(ETA())
FF3=THETA()*EXP(ETA())
F1= 1/(1+FF2+FF3)
F2= FF2/(1+FF2+FF3)
F3= FF3/(1+FF2+FF3)
Leonid
On 12/15/202
wrote:
Hi Leonid,
Thanks for the tips. When you talk about Methods, are you referring to
different ADVANs? e.g. FOCEI ADVAN6 vs. IMP ADVAN6.
Mark
On Wed, Sep 23, 2020 at 5:52 PM Leonid Gibiansky
wrote:
Within one method, FOCEI or IMP models can be compared by OF, but not
between methods
Within one method, FOCEI or IMP models can be compared by OF, but not
between methods. FOCEI and IMP OF are similar by the order of magnitude,
but should not be used for comparison between methods.
SAEM OF should not be used for model comparison at all. Among two models
that differ by SAEM OF,
No, there is no other solution except IOV.
One option to lessen the impart of the discrepancy is to have inflated
residual error in the some interval post-dose
;TAD: time after dose
SD=THETA()
IF(TAD.LE.XX) SD=SD*THETA()
$ERROR
Y=TY*(1+SD*EPS(1))
$SIGMA
1 FIX
Then observations close to the do
may be
D1=DUR*EXP(ETA(1))
IF(D1.GT.DocumentedInfusionDuration) D1=DocumentedInfusionDuration
On 8/5/2020 12:18 PM, Patricia Kleiner wrote:
Dear all,
I am developing a PK model for a drug administered as a long-term
infusion of 48 hours using an elastomeric pump. End of infusion was
documented
Hi Nick,
The question was not how to report measurements, but how to deal with
the simulation from the model, that was likely developed on the data set
where BQLs were either ignored or treated as BQLs (e.g., set to 0, set
to BQL/2, treated with M3: in the best case, the exact method can be
fo
you can treat it as any other value below quantification limit, and
either comment it out (if you do this with other BQLs) or use it (same
as other BQLs)
Leonid
On 6/2/2020 2:13 PM, Nyein Hsu Maung wrote:
Dear NONMEM users,
I tried to simulate a new dataset by using a previously published po
he data_set function in mrgsolve
ds_sim_told %>%
rename(CID = ID, TIME = time, EVID = evid, AMT = amt, CMT = cmt) %>%
write_csv("ds_sim_told.csv", na = ".") #data for NONMEM
*De :*Kyle Baron [mailto:ky...@metrumrg.com]
*Envoyé :* mardi 11 février 2020 17:59
ner-nmus...@globomaxnm.com] De la
part de Leonid Gibiansky
Envoyé : mardi 11 février 2020 15:19
À : nmusers@globomaxnm.com
Objet : Re: [NMusers] Time-varying bioavailability and reproducibility in
NONMEM analysis
could you show equations? Bioavailability is treated differently in Nonmem and
R, so code should re
could you show equations? Bioavailability is treated differently in
Nonmem and R, so code should reflect it.
Thanks
Leonid
On 2/11/2020 3:52 AM, Le Louedec Felicien wrote:
Dear NONMEM users,
I’m struggling for a couple of weeks against contradictory results
between NONMEM and R analysis of t
ERR3 and ERR4 are mixed up, should be in order (in the ERROR block). Can
it be the reason?
Leonid
On 12/8/2019 2:24 PM, Singla, Sumeet K wrote:
Hello everyone!
This is giving me great deal of headache. If you can please help me with
this, my subsequent models will start working too. Please ta
Uppsala University
Box 591
75124 Uppsala
Phone: +46 18 4714308
www.farmbio.uu.se/research/researchgroups/pharmacometrics/
On 2019-11-18 23:54, Leonid Gibiansky wrote:
Hi Jeroin,
Thanks for your input, very interesting. As far as the goal is
concerned, I am mostly interested to find options that
ne to gain speed, but the optimal
settings might be very different for the next and overrule any platform
differences.
Hope this helps,
Jeroen
http://pd-value.com
jer...@pd-value.com
@PD_value
+31 6 23118438
-- More value out of your data!
On 18/11/19 6:34 pm, Leonid Gibiansky wrote:
Than
, N3.158
Northbrook, IL 60062
peter.bon...@astellas.com
(224) 205-5855
Details are irrelevant in terms of decision making - Joe Biden.
-Original Message-
From: owner-nmus...@globomaxnm.com On Behalf Of
Leonid Gibiansky
Sent: Monday, November 18, 2019 11:05 AM
To: nmusers
Subject
Dear All,
I am testing the new Epyc processors from AMD (comparing with Intel
Xeon), and getting different results. Just wondering whether anybody
faced the problem of differences between AMD and Intel processors and
knows how to solve it. I am using Intel compiler but ready to switch to
gfor
actually CMT=-4 turns compartment 4 off. It need to be turned on again,
see by the record with CMT=4 (positive), see
Plasma urine example
in Nonmem help
Leonid
On 11/8/2019 1:47 PM, Leonid Gibiansky wrote:
Negative CMT (in the data set) resets compartment amounts (CMT=-4 in
this case)
EVID
Negative CMT (in the data set) resets compartment amounts (CMT=-4 in
this case)
EVID = 4 resets all system, including A(4) (if washout time was long
and all compartments can be set to 0)
Also, it is easy to do post-processing, subtracting Cycle 1 AUC from
Cycle 1-2 AUC to get Cycle 2 AUC, etc.
I think we are making it more difficult than needed, especially for the
people who just started using the NLME. It does not hurt to include
statistically significant covariate in the model even if the actual
effect is small and does no manifest itself on the standard diagnostic
plots.
It make
We have to be careful with data structure. When Nonmem advances from
time T1=0 to time T2=24 (whether with DES or exact solution), covariate
values (OCC in this case) at time T2=24 are used. So for the data file
presented, 0 to 24 hours will be treated as OCC=2
> will then use CL1=THETA*EXP(ET
To get PRED, nonmem runs the model with all ETAs fixed to zero. COMACT
variable is equal to 1 at this step. So if IPRED is the concentration
predictions, then the line:
IF(COMACT.EQ.1) PREDI=IPRED
will give you concentration predictions when all ETAs are equal to zero
(that is PRED). This i
You need to use FNLETA=0 option.
Thanks
Leonid
On 8/13/2019 4:39 PM, Dumortier, Thomas wrote:
Hello
I would like to model inter-study variability on the of the
inter-subject variability with NONMEM 74
A subject belongs to a study, therefore those two random effects are nested
Following th
Alternatively, if OMEGA block is placed before the $PK block, A()
variables can be used in the PK block, so F1=function(A4) can be defined
there. Results will be different, as this procedure will use A(4) at
dose time to reduce the dose while the $DES block version will use
current A(4) to redu
Not sure why would we need NPARAM there, is it necessary? I think one
can skip it.
On the different topic, expression for IWRES is not correct:
IWRES=IRES/(IPRED * EPS(1) + EPS(2))
This is the version that should be used:
IWRES=IRES/SQRT(IPRED**2 * SIGMA(1,1) + SIGMA(2,2))
Also it is more tr
The code will work as written (if you add ENDIF after TVVM = THETA (6),
and define all parameters CL, V1, Q, V2, KINT, ...) but mechanistically,
this is not a good idea to have two models for two dose levels. You may
want to try QSS model with non-constant Rtot (MM model is usually good
when R
Nonmem needs to allocate memory for all variables stored in the MSF
file. For that, it counts THETAs and ETAs and SIGMAs in the control
stream. If some of them are not listed (often we do not need all
parameters of the model for a specific simulation), one needs to tell
the program how much mem
Hi Andrew,
SAEM equivalent of MAXEVAL=0 would be EONLY=1
Results should not depend on the method so you should be safe just using
FOCEI for model evalaution. Also, what was the problem with
"non-convergence of the base model", was it just error code 134? If the
model is stable (solution does n
One can get PRED at BQLs using COMACT option, see manual:
"COMACT=1 is a pass with final thetas and zero-valued etas".
Things computed at this stage are based on THETAS with zero ETAs and
thus provide PRED values. E.g.,
IPRED = ...
IF(COMACT==1) PRED1=IPRED
creates the PRED1 variable that is
Sumeet,
DV vs IPRED is only one, and the least helpful plot. You may want to look on DV
vs PRED, both in original scale and on log log scale, CWRES vs time, PRED,
distributions and correlation of random effects, etc. and only then one can
decide which of the models is better. Based on the descri
It could be just coding error, could you show the control stream?
Thanks
Leonid
> On Feb 3, 2019, at 12:44 PM, Singla, Sumeet K wrote:
>
> Hello everyone!
>
> I have a question. I was trying to build a 2-compartment PK model for
> marijuana use in occasional and chronic smokers. Initially, I
cific number of characters.
I always thought the limit was 300, but apparently it may be less.
Again, thanks to all for thinking through this.
-----Original Message-
From: Leonid Gibiansky
Sent: Dienstag, 20. November 2018 20:13
To: Lindauer, Andreas (Barcelona) ;
nmusers@globomaxnm.com
Cc
with dummy data that can be shared.
Regards, Andreas.
-Original Message-
From: Ekaterina Gibiansky
Sent: Dienstag, 20. November 2018 16:29
To: Leonid Gibiansky ; Lindauer, Andreas (Barcelona)
; nmusers@globomaxnm.com
Subject: Re: [NMusers] Potential bug in NM 7.3 and 7.4.2
And one more questio
Never seen it.
This will not solve the problem, but just for diagnostics, have you
found out what is "damaged" in the created data files: is the number of
subjects (and number of data records) the same in both versions
(reported in the output file)? Among columns used in the base model (ID,
T
You should not expect dramatic differences between the model with
central binding and peripheral binding. So if the model failed
(completely failed ? or just not good enough?), this is for some other
reasons. You may want to start with the simple linear model, find
parameters, then add Michaeli
you need to use ADVAN3, or
with ADAN 4 put the dose to CMT=2, define D2 (not D1) and assign and FIX KA
Leonid
On 10/1/2018 11:12 AM, Bishoy Hanna wrote:
Hello all,
I am currently trying to model data for a compound that is orally administered.
A two compartment model with FIRST order oral ab
mittal, in any form, is prohibited except by or on behalf
of the intended 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: Leonid Gibiansky
Sent: Thursday,
Mark,
IMPMAP procedure produces run.cnv file. There you can find mean and SD
of OF (over the last few iterations that were considered for convergence
stop). I use these numbers for covariate assessment as
iteration-to-iteration numbers oscillate and cannot be reliably compared.
Concerning th
QuantPharm is collaborating with ICON to present a workshop on
“Modeling Biologics with Target-Mediated Disposition”
It will be presented on the East Coast, near Baltimore-Washington
International Airport, at 6751 Columbia Gateway Drive, Columbia MD 21046
14th September 2018
The worksh
t.ba...@iconplc.com <mailto:robert.ba...@iconplc.com>
www.iconplc.com <http://www.iconplc.com/>
*From:*owner-nmus...@globomaxnm.com
[mailto:owner-nmus...@globomaxnm.com] *On Behalf Of *Leonid Gibiansky
*Sent:* Friday, May 04, 2018 10:16 AM
*To:* Kyle Baron; Paolo Denti
*Cc:* Bob Leary; nmuser
discontinuity issues.
Kevin
*From:*owner-nmus...@globomaxnm.com
[mailto:owner-nmus...@globomaxnm.com] *On Behalf Of *Kyle Baron
*Sent:* Friday, May 4, 2018 1:21 PM
*To:* Leonid Gibiansky
*Cc:* Paolo Denti ; Bob Leary
; nmusers@globomaxnm.com
*Subject:* Re: [NMusers] Cmax/Tmax in the DES block
uot; when NONMEM has overshot the solution and then it
would take a step back?
Just an idea on something to check. But I guess the NONMEM
developers may have a quick answer to this one (hint hint).
Paolo
On 2018/05/04 17:32, Leonid Gibiansky wrote:
The procedure d
to have a grid generator within NMTRAN that lets you just
specify beginning and end points and number of points in the grid.
I would point out that Phoenix NLME PML has always had this capability.
Bob Leary
-Original Message-
From: owner-nmus...@globomaxnm.com On Behalf Of
Leonid Gibiansky
Interesting experience concerning computation of Cmax and Tmax (and
probably other stats) in the DES block. We used to use this way:
http://cognigencorp.com/nonmem/current/2007-December/4125.html
Specifically, reserved the place in the memory:
$ABB COMRES=2
Set these values to zero for each n
It would be better to use
$EST METHOD=1 INTERACTION MAXEVAL=0
(at least if the original model was fit with INTERACTION option and
residual error model is not additive).
One option is to use Para = THETA * EXP(ETA)
You would be changing the model, but the model is not too good any way
if you
t of NONMEM that I didn't know related to controlling
infusion rates in the $DES block. (Feature request to Bob and Alison: Maybe
in NONMEM 7.5, the user could set R1 = -1 in $PK and have continuous control
of R1 in $DES-- generalized to include all compartments.)
Thanks,
Bill
-Original
Hi Bill,
I think the proposed original solution is the only one if you would like
to implement it exactly. May be it can be approximated somehow? What is
the real reason for this questions? What is the biology behind the
time-variant IV bioavailability? Or what is the model mis-fit that you
a
I think this is overkill to have 10 occasions, and this could be a
problem. Try to start first with 2 occasions (e.g, first 5 doses and the
rest). If this works it means that it is just a numerical problem.
Also, just to check, try
Y=LOG(F+0.0001)+EPS_EXP
to remove the possibility of F=0.
Than
Hi Bill,
I do not think this is possible, but you are making things more
complicated than needed. You can slice the data set as needed using
IGNORE/ACCEPT options. For analytical ADVAN models, you often do not
need CMT item, and if needed, you can introduce extra columns CMT1,
CMT2, CMT3, and
One option is to run all analyses in analytical ADVANs and then re-run
the final model in differential equations. If the results are close, it
could be used as a justification of the final model. If not,
differential equations solution should be preferred, I guess. In our
experience, analytical
QuantPharm is collaborating with ICON to present a workshop on
“Modeling Biologics with Target-Mediated Disposition”
It will be presented on the West Coast, at San Francisco Airport
DoubleTree by Hilton, 835 Airport Boulevard, Burlingame, CA on
16th February 2018
The workshop is intended for
from the manual:
"When the IGNORE option is used to filter records from the input file,
the .EQ., =, .NE., and /= symbols perform literal string comparisons. To
provide a numerical equality comparison, use .EQN. for numerical equals,
and .NEN. for numerical not equals."
May be there is a spa
Dear All,
Could you share if you have any experience with Intel AVX (Advanced
Vector Extensions) and AVX2 set of instructions for Intel compiler on
recent processors: does it work with Nonmem, does it allow to speed up
the fitting, and by how much. Compiler versions/options and processor
vers
CMT is important for dosing: it directs the dose to the appropriate
compartment (equation number).
It is a common misconception that CMT has to be related to observations.
It is relevant for observations only if F notation is used (and
therefore it is better to avoid using this notation).
Fo
One simple option is to stack simulation data files together, with
EVID=4 for the first (or the only) dose of the second file.
Leonid
On 3/9/2017 6:11 PM, Faelens, Ruben (Belgium) wrote:
Hi Penny,
Nonmem indeed calculates each subject one after the other. The random
values will therefore c
One of the tools available for simulations is Metrum R package
metrumrg
install.packages("metrumrg", repos="http://R-Forge.R-project.org";)
Example of applications can be found here:
http://www.page-meeting.org/page/page2006/P2006III_11.pdf
Since the time it was written (2005-2006), Nonmem en
STANT: 5801.3214723745577
OBJECTIVE FUNCTION VALUE WITH CONSTANT: 6856.2629084935215
REPORTED OBJECTIVE FUNCTION DOES NOT CONTAIN CONSTANT
Best wishes,
Nick
On 17-Jan-17 07:18, Leonid Gibiansky wrote:
Note however that (from Nonmem 7.3 guide):
-
The objective function SAEMOBJ that is disp
Note however that (from Nonmem 7.3 guide):
-
The objective function SAEMOBJ that is displayed during SAEM analysis is
not valid for assessing minimization or for hypothesis testing. It is
highly stochastic, and does not represent a marginal likelihood that is
integrated over all possible e
I think it would help if you provide the code and the reference and the
sample data set: some published papers contain typos, so it is hard to
give a general advice based on limited information
Thanks
Leonid
On 1/5/2017 10:44 AM, Zhu, Penny wrote:
Dear Ankekatrin, Jeroen and Sam
Many thanks
the modeling
Thanks,
Abdullah
*From:* Leonid Gibiansky
*Sent:* Tuesday, September 27, 2016 5:49:00 PM
*To:* Sultan,Abdullah S; nmusers@globomaxnm.com
*Subject:* Re: [NMusers] residual variability
Abdullah,
Do you have
Abdullah,
Do you have random effect on the lag time? Models with random effects on
the lag time are very difficult to work with, try to remove the lag and
use the transit compartment(s) to describe the delay. Make sure you have
INTERACTION option on the estimation step, use METHOD=1. Sometimes
not solve the issue. We will further evaluate if the
information from all nodes is used for the population update.
Any further hints are highly welcome
Best
Dirk
-Ursprüngliche Nachricht-
Von: Leonid Gibiansky [mailto:lgibian...@quantpharm.com]
Gesendet: Montag, 19. September 2016 22:2
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