I am sorry I should have stated the whole problem:
I appreciate all the help I have received from this list and also not being
flamed because I am new to R. Many of my problems are in automation so far.
I am trying to create multiple objects that are outputs of functions. Here
are the tasks:
aGAM<-somers2(Pred_pres_a_indpdt[,3,,],population[,23])
aGBM<-somers2(Pred_pres_a_indpdt[,4,,],population[,23])
cGLM<-somers2(Pred_pres_a_indpdt[,5,,],population[,23])
cRF<-somers2(Pred_pres_a_indpdt[,8,,],population[,23])
bGAM<-somers2(Pred_pres_b_indpdt[,3,,],population[,24])
bGBM<-somers2(Pred_pres_b_indpdt[,4,,],population[,24])
bGLM<-somers2(Pred_pres_b_indpdt[,5,,],population[,24])
bRF<-somers2(Pred_pres_b_indpdt[,8,,],population[,24])
...and so on through the letter f.
so the variables (x,y,z in this example) are as follows:
xGAM<-somers2(Pred_pres_x_indpdt[,y,,],population[,z])
the GAM, GBM, GLM, and RF are stored in a column y in "Pred_pres_x_indpdt."
x is denoting a species, which corresponds to column z in "population," so
a:f == 23:28
~~~
This may be pushing it, but it would be great if I could get all of these in
a matrix of dim[1,96]
Here is what I have so far:
x <- c("a","b","c","d","e","f")
nums <- c(23:28)
rank<-function(x){
for(y in nums){
xGAM<-somers2(Pred_pres_x_indpdt[,3,,],population[,y])
xGBM<-somers2(Pred_pres_x_indpdt[,4,,],population[,y])
xGLM<-somers2(Pred_pres_x_indpdt[,5,,],population[,y])
xRF<-somers2(Pred_pres_x_indpdt[,8,,],population[,y])
rank(x)
}}
#for each species, there is 16 columns of output, so a total of 96 columns
is needed
x_matrix<-matrix(c(xGAM[1:2],Evaluation.results.TSS[[1]][1,3:4],xGBM[1:2],Evaluation.results.TSS[[1]][2,3:4],
xGLM[1:2],Evaluation.results.TSS[[1]][3,3:4],xRF[1:2],Evaluation.results.TSS[[1]][4,3:4]),
nrow=1,ncol=16,
dimnames=list(c(""),
c("x_gam_AUC", "x_gam_Dxy","x_gam_TSS","x_gam_Cutoff","x_gbm_AUC",
"x_gbm_Dxy","x_gbm_TSS","x_gbm_Cutoff",
"x_glm_AUC", "x_glm_Dxy","x_glm_TSS","x_glm_Cutoff","x_rf_AUC",
"x_rf_Dxy","x_rf_TSS","x_rf_Cutoff")))
Thanks again for helping me out
Steve Lianoglou-6 wrote:
>
> Hi,
>
> On Jul 31, 2009, at 12:25 PM, RR! wrote:
>
>> I have a series of columns that need to be evaluated in various
>> tables. I
>> need to apply a function in the following manner
>> somers2(name1,name2). name1
>> is a vector of x inputs for the function which correspond to a
>> vector of y
>> inputs in name2.
>>
>> y<-rep(c(3,4,5,8),6)
>> z<-rep(c(23,24,25,26,27,28),4)
>> name1<-sprintf("Pred_pres_%s_indpdt[,%s,,]",x,y)
>> name2<-sprintf("population[,%s]",z)
>>
>>
>> rank<-function(i,j){
>>
>> for(i in name1){
>> for(j in name2){
>> somers2(i,j)
>> }}}
>
> You're missing a value for x, so I'm finding it hard to understand
> what you're trying to do, exactly. From your double for loop, it seems
> like you just want to compute the function over all vals in X, and
> each x against all Y.
>
> Does this help?
>
> R> x <- LETTERS[1:3]
> R> y <- LETTERS[10:15]
> R> all.vals <- expand.grid(x,y, stringsAsFactors=F)
> R> all.vals[1:3,]
>Var1 Var2
> 1AJ
> 2BJ
> 3CJ
>
> R> ans <- lapply(seq(nrow(all.vals)), function(i) paste(all.vals[i,1],
> all.vals[i,2], sep='(*)'))
> R> ans[1:3]
> [[1]]
> [1] "A(*)J"
>
> [[2]]
> [1] "B(*)J"
>
> [[3]]
> [1] "C(*)J"
>
> -steve
>
> --
> Steve Lianoglou
> Graduate Student: Computational Systems Biology
>| Memorial Sloan-Kettering Cancer Center
>| Weill Medical College of Cornell University
> Contact Info: http://cbio.mskcc.org/~lianos/contact
>
> __
> R-help@r-project.org mailing list
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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.
>
>
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