R help - Sep 2012 - Generalized additive models: Plots for Qualitative Data

Hello,
My name is Dontrece Smith. I am creating figures for my GAMs. I change my
qualitative variables to 1 or 2 in my dataset, so I would be able to run my
GAMs. However, R will only display plots for my quantitative variables and
not my qualitative variables. Is there any way to fix this issue? I listed
some of my code below:
> library(mgcv)
This is mgcv 1.7-13. For overview type
'help("mgcv-package")'.
> Final <- read.csv("Final.csv", header=TRUE)
> gam4<-gam(Bonnet ~ s(Depth, bs="cs", k=4) + s(Distance,
bs="cs", k=4) +
s(Width, bs="cs", k=4) + as.factor (System) + as.factor(Channel) +
as.factor (Profile)  + s(Slope, bs="cs", k=4), data =
Final)
> plot(gam4, shade=TRUE, pages=1)
Sincerely,

Dontrece

-- 
Dontrece Smith
4906 Taylor Road
Savannah, GA 31404
(770) 401-3371

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On Sep 6, 2012, at 4:50 AM, Dontrece Smith wrote:
> Hello,
> My name is Dontrece Smith. I am creating figures for my GAMs. I change my
> qualitative variables to 1 or 2 in my dataset, so I would be able to run my
> GAMs. However, R will only display plots for my quantitative variables and
> not my qualitative variables. Is there any way to fix this issue? I listed
> some of my code below:
> 
>> library(mgcv)
> This is mgcv 1.7-13. For overview type
'help("mgcv-package")'.
>> Final <- read.csv("Final.csv", header=TRUE)
>> gam4<-gam(Bonnet ~ s(Depth, bs="cs", k=4) + s(Distance,
bs="cs", k=4) +
> s(Width, bs="cs", k=4) + as.factor (System) + as.factor(Channel)
+
> as.factor (Profile)  + s(Slope, bs="cs", k=4), data = Final)
>> plot(gam4, shade=TRUE, pages=1)
Why not use predict()?

-- 

David Winsemius, MD
Alameda, CA, USA

Dontrece,

Try using the all.terms argument to the plot.gam() function.

plot(gam4, shade=TRUE, pages=1, all.terms=TRUE)

Does that work?

Jean


Dontrece Smith <smithdon2469@gmail.com> wrote on 09/06/2012 06:50:07
AM:
> 
> Hello,
> My name is Dontrece Smith. I am creating figures for my GAMs. I change 
my
> qualitative variables to 1 or 2 in my dataset, so I would be able to run 
my
> GAMs. However, R will only display plots for my quantitative variables 
and
> not my qualitative variables. Is there any way to fix this issue? I 
listed
> some of my code below:
> 
> > library(mgcv)
> This is mgcv 1.7-13. For overview type
'help("mgcv-package")'.
> > Final <- read.csv("Final.csv", header=TRUE)
> > gam4<-gam(Bonnet ~ s(Depth, bs="cs", k=4) + s(Distance,
bs="cs", k=4)
+
> s(Width, bs="cs", k=4) + as.factor (System) + as.factor(Channel)
+
> as.factor (Profile)  + s(Slope, bs="cs", k=4), data = Final)
> > plot(gam4, shade=TRUE, pages=1)
> 
> Sincerely,
> 
> Dontrece
> 
> -- 
> Dontrece Smith
> 4906 Taylor Road
> Savannah, GA 31404
> (770) 401-3371
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