[ADMB Users] Integrating R and ADMB to generalize TPL files

[H. Skaug]

Jeff,

I will not judge what is right or wrong, but here are my simple preferences
over the past 10 years:
1. Communicate between R and ADMB via textfiles, e.g. R2admb
2. Do as much as possible of the pre and post processing in R. Hence
   model.matrix() belongs on the R side.

Hans

On Tue, Oct 30, 2012 at 5:37 PM, Jeff Laake <jefflaake at gmail.com> wrote:
> I'm a newbie at ADMB but have been using R for over a decade. Coming from R
> my inclination was to integrate R and ADMB and I found the R2admb package
> that Ben Bolker wrote. That package makes it quite easy to use R in
> constructing TPL files and drive model development from R rather than
> editing TPL in an IDE or text editor. In particular, I'm using model.matrix
> in R to create design matrices that are input as DATA into ADMB. This means
> a basic TPL file can be used without modification to run any number of
> models directly from R.  I mentioned this to a colleague who said that his
> biggest complaint about ADMB was it's lack of tools such as model.matrix.
> When I showed him my approach he suggested that I post a message to the user
> list as others may be interested as well. The following link
> https://github.com/downloads/jlaake/R2admb/Intro_to_r2admb.pdf  will take
> you to a pdf that shows a couple of examples. The first shows how to extend
> simple.tpl to fit any model and the second more useful example fits
> detection curves to line transect data. The code for these examples is at
> https://github.com/jlaake/R2admb/tree/master/Intro%20to%20R2admb
>
> I'd appreciate getting any comments about its usefulness (or not) and my
> admb programming which I'm still learning, I believe that integration of
> admb into R (as in glmmADMB) will help make ADMB more mainstream in ecology
> and other fields.
>
> regards --jeff laake
>
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