R help - Oct 2015 - contrasts among simple effects

Greetings R Community

My goal is to make orthogonal contrasts among simple effects in analysis of
repeated measures data.  The SAS publication, on page 1224, shows how to
make this type of contrasts in SAS.  But, my search of books about repeated
measures analysis using R, and on-line has not yielded a methodology.
Hopefully, someone can direct me to a book or publication that will show me
a methodology.

Statistical Analysis of Repeated Measures Data Using SAS Procedures

http://cslras.pbworks.com/f/littell_j_anim_sci_76_4_analysis_of_repeated_measures_using_sas.pdf



Attached is a csv data file (file name = heartRate.csv).  My code for the
repeated measures analysis is below.


library("nlme")

# with AR1 variance/covariance structure, with ordered statement

heartRate$time <- factor(heartRate$time)

model2a <- lme(HR ~ drug*ordered(time), random =~1|person, correlation
=corAR1(, form=~1|person), data = heartRate)

summary(model2a)

anova(model2a)


Making a new variable ?simple? that merges the variables drug and time will
enable me to make orthogonal contrasts among the simple effects.  But, when
using the variable ?simple? as the independent variable, the data will no
longer be fitted to the AR1 variance/co-variance structure.

Thanks.

Best regards,

James F.Henson

On Oct 13, 2015, at 11:16 AM, James Henson wrote:
> Greetings R Community
> 
> My goal is to make orthogonal contrasts among simple effects in analysis of
> repeated measures data.  The SAS publication, on page 1224, shows how to
> make this type of contrasts in SAS.  But, my search of books about repeated
> measures analysis using R, and on-line has not yielded a methodology.
> Hopefully, someone can direct me to a book or publication that will show me
> a methodology.
> 
> Statistical Analysis of Repeated Measures Data Using SAS Procedures
> 
>
http://cslras.pbworks.com/f/littell_j_anim_sci_76_4_analysis_of_repeated_measures_using_sas.pdf
> 
> 
> 
> Attached is a csv data file (file name = heartRate.csv).

The .csv file type is not accepted by the mail server, ever. You would probably
get it to be passed through to the list audience if you changed its name to: 
heartRate.txt

>  My code for the
> repeated measures analysis is below.
> 
> 
> library("nlme")
> 
> # with AR1 variance/covariance structure, with ordered statement
> 
> heartRate$time <- factor(heartRate$time)
> 
> model2a <- lme(HR ~ drug*ordered(time), random =~1|person, correlation
> =corAR1(, form=~1|person), data = heartRate)
> 
I would have expected `time` to be in that formula. I do think that the correct
mailing list would have been r-sig-mixed-models at r-project.org

> summary(model2a)
> 
> anova(model2a)
> 
> 
> Making a new variable ?simple? that merges the variables drug and time will
> enable me to make orthogonal contrasts among the simple effects.  But, when
> using the variable ?simple? as the independent variable, the data will no
> longer be fitted to the AR1 variance/co-variance structure.
> 
> Thanks.
> 
> Best regards,
> 
> James F.Henson
> ______________________________________________
David Winsemius
Alameda, CA, USA