Hi all,
I was implementing transit compartment for a absorption model for the first
time. I could not understand why the relationship between mean transit time and
transit rate is MTT=(n+1)/Ktr.
Could someone help me understand?
Thank you.
Bauer, Robert"
To: Ethan Wu ; nmusers@globomaxnm.com
Sent: Thu, September 16, 2010 2:26:07 PM
Subject: RE: [NMusers] quality of SE estimate by IMP method
Yes. Read the METHOD=CHAIN section in the intro712.pdf manual.
Robert J. Bauer, Ph.D.
Vice President, Pharmacometrics
ICON Development
Hi Bob,
Is there a way to pick up from the last run with SAEM/IMP so to only run the
additional step IMPMAP?
Thank you.
From: "Bauer, Robert"
To: Ethan Wu ; nmusers@globomaxnm.com
Sent: Thu, September 16, 2010 12:12:28 PM
Subject: RE: [NMusers]
Dear uses,
I am using NM7 SAEM method for an analysis. As I learned from NM7 workshop, I
used IMP method after SAEM to generate SE estimate.
In this case, at the end of SAEM iteration, OBJ was quite stable and negative
several thousand.
But, with IMP, after 5 iterations, Obj was up to posit
Hi users,
I ran into this error with a analyis using PRED routine.
0MINIMIZATION TERMINATED
DUE TO MAX. NO. OF FUNCTION EVALUATIONS EXCEEDED
NO. OF FUNCTION EVALUATIONS USED: 10093
NO. OF SIG. DIGITS UNREPORTABLE
I did find in previous discussion, people suggested to do by adding this unde
Dear Jakob and all,
In this thread, Mats clearly indicated Eta is assumed normal distributed.
But, others have said differently.
I wonder which statement is correct?
From: "Ribbing, Jakob"
To: nmusers
Sent: Tue, June 1, 2010 3:10:44 AM
Subject: RE: [N
simulate, it is OK to use the Eta estimate and assume
it is normal distributed to draw the random subjects.
From: Matt Hutmacher
To: Ethan Wu ; Serge Guzy ;
nmusers@globomaxnm.com
Sent: Fri, May 28, 2010 2:43:04 PM
Subject: RE: [NMusers] distribution assumption of
I could not find in the NONMEM help guide that explicitly mentioned a normal
distribution is assumed, only it was clearly mentioned of assumption of mean of
zero.
From: Serge Guzy
To: Ethan Wu ; nmusers@globomaxnm.com
Sent: Fri, May 28, 2010 1:25:24 PM
Dear users,
Is it true NONMEM dose not assume Eta a normal distribution?
If it does not, I wonder what distribution it assumes? I guess this is
critical when we do simulations.
Thanks
Uppsala
Sweden
---
sebastian.ueck...@farmbio.uu.se
---
Work: +46-(0)18-471 4437
On Wed, May 12, 2010 at 4:13 PM, Ethan Wu wrote:
IACCEPT
Dear users,
I recently started using IMP methods offered by nm7.
In the first IMP step, I had 100 iterations and the OBJ was quite stable
already around 20 iterations.
In the second IMP step to obtain SE of the estimate,
as "$EST METHOD=IMP EONLY=1 INTERACTION NOABORT NITER=20 SIGL=4 NSIG=1
error
model, but, I still kept estimating different err for studies.
From: "Ahn, Jae Eun"
To: Ethan Wu ; nmusers@globomaxnm.com
Sent: Thu, February 11, 2010 12:06:49 PM
Subject: RE: [NMusers] help on diagnostic of a problem -- about M3 method for
LLO
Dear users,
I am working on a dataset with not small percentage below LLOQ.
when I implemented M3 method to account for this, I always getting this error
message:
0PROGRAM TERMINATED BY OBJ
ERROR IN CLIK WITH INDIVIDUAL 2 ID=0.1900E+02
CONDITIONAL LIKELIHOOD FOR SOME OBSERVATION ESTIMATED
, I really can't find
a better structure model, and for the later covariate modeling, as I understand
from a paper from Mats' group, having a proper residual model could
prevent inflation of type1 error.
From: "Gastonguay, Marc"
To: E
Dear all,
I am fitting a PK/PD model using FOCE INT. I do see a high correlation
between WRES
I wonder could someone help me with implementation of AR residual error
model in NONMEM.
Many thanks! Happy new year to all.
Dear Grevel,
could you kindly point out the reference where this statment comes from: "A
further trick to make it all work is to logarithmically transform all
concentrations as recommended by Mats Karlsson."
thanks
From: "Grevel, Joachim"
To: nmusers@gl
Dear uses, I am getting this error from the nonmem, pop parameters was
estimated but no table output
"0PROGRAM TERMINATED BY NP4F
PRED RETURNS DIFFERENT OUTPUTS WITH THE SAME INPUTS
MESSAGE ISSUED FROM TABLE STEP"
What does this NP4F, and Pred returns different outputs with the same inputs
me
Dear users, I read nm7 is offering SAEM method. Does it have the option to use
simulated annealing?
thanks.
ample study were much larger.
so I think I will further pursue exploration of IOV, as Jakob pointed out.
From: James G Wright
To: Stephen Duffull ; Mats Karlsson
; "Ribbing, Jakob" ;
Ethan Wu ; Jurgen Bulitta ;
nmusers@globomaxnm.com
Cc: Roger Je
del itself.
From: "Ribbing, Jakob"
To: Ethan Wu ; Jurgen Bulitta
; nmusers@globomaxnm.com
Cc: Roger Jelliffe ; "Neely, Michael"
Sent: Wednesday, June 17, 2009 4:43:28 PM
Subject: RE: [NMusers] estimating Ka from dataset combining rich sample study
and sparse samplin
Dear Leonid
yes, this is another way to move forward, similar as fixing eta to estimate
from rich data.
From: Leonid Gibiansky
To: Ethan Wu
Cc: Jurgen Bulitta ; "nmusers@globomaxnm.com"
; Roger Jelliffe ; "Neely, Michael"
Sent: Wednes
Eta only as offered in nonmem.
so I went ahead tried $NONPARAMETRIC UNCONDITIONAL option, but the Eta for Ka
still estimated to be very small, 5.50E-08 vs 0.13 estimated by using rich data
only.
From: Jurgen Bulitta
To: Ethan Wu
Cc: "nm
Dear all,
I am working on this pop PK analysis. the objective is, to explore some
covariates on the exposure.
the dataset has rich sampled study, with absorption phase well captured. and
also sparse sampling study with only trough sample, and another sample around
1-2hr after dosing
with ri
eed to use your brains (NONMEM does not have a brain) and your
common sense to decide if your model makes sense or is perhaps
overparameterised.
Nick
Ethan Wu wrote:
>
> Dear all,
>
> I am fitting a PD response, and the equation goes like this:
>
> total response = baseline
"
To: Ethan Wu ; nmusers@globomaxnm.com
Sent: Wednesday, April 15, 2009 12:12:56 PM
Subject: RE: [NMusers] OMEGA selection
Well, the first thing that I would do is look at the magnitude of the estimates
of the etas. I would eliminate those etas that are poorly estimated
(essentially the
Dear all,
I am fitting a PD response, and the equation goes like this:
total response = baseline+f(placebo response) +f(drug response)
first, I tried full omega block, and model was able to converge, but $COV stop
failed.
To me, this indicates that too many parameters in the model. The structure
an"
Sent by: owner-nmus...@globomaxnm.com
20-Mar-2009 09:17
To "'Martin Bergstrand'" , "'Ethan Wu'"
, nmusers@globomaxnm.com
cc
Subject RE: [NMusers] calculation of AUC
The easiest answer is to work it out. Do some simulations (wit
Hi all, to calculate AUC of one of the compartments using ADVAN6, if it is a
fixed time interval, will the AUC be influenced by the frequncy of sampling of
the dataset within this interval or not?
thanks
Hi Elodie, work this way.
I don't know why doing what Bill suggested not working., hmm
anyway, thanks for all the input
From: Elodie Plan
To: Ethan Wu ; nmusers@globomaxnm.com
Sent: Tuesday, March 10, 2009 8:44:06 AM
Subject: RE: [NMusers] add an item t
RINTED: NO
HEADERS: ONE
FILE TO BE FORWARDED: NO
0USER-CHOSEN ITEMS
IN THE ORDER THEY WILL APPEAR IN THE TABLE:
ID ETA1 ETA2 ETA3 ETA4 ETA5 ETA6
THERE ARE 0 ETAS
0ETA 6 IS USED IN TABLE 1
"
____
From: Bill B
Dear all,
after long hrs and final completion, I just realized that forgetting to ask
for one ETA in the output table.
is there way to recove this missed eta to the output w/o going through the
whole running again?
thanks!
t;kyunseop@gmail.com"
To: Ethan Wu
Sent: Thursday, February 26, 2009 8:19:06 PM
Subject: RE: [NMusers] var-cov matrix issue?
Dear Ethan,
If your model has only diagonal elements in OMEGA matrix, you don't need to
care about the following - positive definiteness of OMEGA matrix during
Dear Kyun,
thanks for your help.
I don't know if I understand this one
"Some caution is necessary to simulate omega matrix that is alwasy positive
definite. "
Could you explain a bit more?
From: "kyunseop....@gmail.com"
of the original message.
-Original Message-
From: owner-nmus...@globomaxnm.com
[mailto:owner-nmus...@globomaxnm.com]on Behalf Of Leonid Gibiansky
Sent: Tuesday, February 24, 2009 15:59 PM
To: Bachman, William
Cc: Ethan Wu; justin.wilk...@novartis.com; nmusers@globomaxnm.com
Subject: Re: [NM
el
Switzerland
Phone: +41 61 324 6549
Fax: +41 61 324 3039
Cell: +41 76 561 0949
Email : justin.wilk...@novartis.com
- Forwarded by Justin Wilkins/PH/Novartis on 2009/02/24 07:15 PM -----
Ethan Wu
Sent by: owner-nmus...@globomaxnm.com
2009/02/24 07:12 PM To nmusers@globomaxnm.com
Dear all,
I recently encounter this error message (below). My objective was to use
nonmem var-cov output for approximation of distribution of parameters for
performing a simulation.
if such error message occur, is the var-cov matrix still OK to use?
-- I know that better way to figure out d
astian Ueckert 02/06/09 10:51 >>>
On Thu, Feb 5, 2009 at 11:18 PM, Ethan Wu wrote:
> Dear users,
> I am trying to compare several specific PK/PD study designs by:
> -- run 200 simulations with the final model (develope from original
> dataset)
> -- fit the final mod
Dear Martin and Elodie and others,
Thanks for pointing out this nice function of PsN-- I think I will give it a
try this time.
From: Martin Bergstrand
To: Sebastian Ueckert ; Ethan Wu
Cc: nmusers@globomaxnm.com
Sent: Friday, February 6, 2009 5:52:09
Dear users, I just sent one question to the list today, looks like it was
treated as spam message!
is there anyway to retrieve my email of question to the list?
- Forwarded Message
From: "ab...@global.sprint.com"
To: ethan.w...@yahoo.com
Sent: Thursday, February 5, 2009 7:12:03 PM
S
Dear users,
I am trying to compare several specific PK/PD study designs by:
-- run 200 simulations with the final model (develope from original dataset)
-- fit the final model to the 200 simulated dataset
To achieve above, I used $SIM SUBPROB=200 option
however, nonmem would completely sto
Dear all, I am trying to run a PK/PD model with PD being binary data. After
looking into previous post I got my control stream running. My question is that
how to assess the model fit? Can I still use PRED, RES and WRES? Attached is
the code I found and used after a bit modification.
##
: Jun Shen
To: Ethan Wu
Cc: nmusers@globomaxnm.com
Sent: Tuesday, December 16, 2008 6:33:04 PM
Subject: Re: [NMusers] model validation
Ethan,
There are many different methods and tools to perform model validation. In
addition to what Karl has already mentioned, I will also recommend the
Dear all,
First of all, as new comer to the list, I would like to say Hi to everyone.
I am planning to validate an PK model with a new dataset, my question is
that, what is the basic steps of using NONMEM to accomplish it? Many thanks in
advance.
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