[R] explaining a model with rcs() terms
Frank E Harrell Jr
f.harrell at vanderbilt.edu
Mon Dec 1 14:48:28 CET 2008
David Winsemius wrote:
>
> On Nov 30, 2008, at 10:23 PM, Dylan Beaudette wrote:
>
>> Hi, I am using the rcs() function in the Design library to model
>> non-linearity that is not well characterized by an otherwise
>> mechanistic function. I am able to make the model 'available' to
>> others through the excellent nomogram() function and the set of tables
>> that it can create. However, I would like to present the model in an
>> 'expanded' format-- probably what rcspline.restate() or latex.Design()
>> produce on a model fit object.
>>
>> Here is how the model was fit:
>>
>> fit.ols <- ols( log(k) ~ (rcs(activity) * (log(conc) + sar)) +
>> (rcs(sand) * (log(conc) + sar)), data=sm.clean, x=TRUE, y=TRUE)
>>
>> Here is how I am accessing the 'expanded' format of the model structure:
>>
>> options(digits=3)
>> latex(fit.ols, file='fit_rcs.tex')
>>
>> The output contains several notation elements that I am not familiar
>> with:
>>
>> 1. x_{+} --> it seems that this represent a term that should be set
>> to 0, when x is 0?
>
> It is set to zero when the term inside the cubic is less than zero. See
> pages 20-21 of Harrell's book where the basis functions are described
> and illustrated.
>>
>> i.e. the entire expression −453(activity − 0.842)_{+}^{3} = 0 when
>> 'activity' = 0 ??
>
> .... whenever (activity − 0.842) < 0
>
>
>
>>
>> 2. the '!x' found in :
>>
>> +log(conc) [ −0.0118sand + 9.58
>> ! ×
>> !10−6 (sand − 11.6)
>
> My guess is that this is 9.58 x 10^-6
>>
>> − 0.000128(sand − 37.5)
>> +0.00045(sand − 47.2)
>> − 0.000350(sand − 51)
>> + 1.86
>> ! ×
>> !10−5 (sand − 69.8) ]
>
> I don't see anything like that in Harrell's text and I am wondering if a
> different character is getting rendering incorrectly. The only time you
> see it is when the exponent is below -4.
>
>
>>
>>
>>
>> .... what exactly does that mean?
>>
>>
>> An image version of the equation in question is attached.
>>
>> Any input would be greatly appreciated!
>>
>> Cheers,
>>
>> Dylan
Thanks for the good reply David.
There is a bug in one of the Hmisc functions regarding the ! spacing
command. If you get any LaTeX syntax errors I can send you
the correction.
Frank
>> <complex_equation.png>______________________________________________
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>> PLEASE do read the posting guide
>> http://www.R-project.org/posting-guide.html
>> and provide commented, minimal, self-contained, reproducible code.
>
> ______________________________________________
> R-help at r-project.org mailing list
> https://stat.ethz.ch/mailman/listinfo/r-help
> PLEASE do read the posting guide
> http://www.R-project.org/posting-guide.html
> and provide commented, minimal, self-contained, reproducible code.
>
--
Frank E Harrell Jr Professor and Chair School of Medicine
Department of Biostatistics Vanderbilt University
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