R help - Dec 2010 - T2 hoteling

Dear All

It is very kind of you to guide me.

When I want to run this line, I see this error

stat.obs <- apply(GS, 2, function(z) Hott2(t(DATA[which(z==1),]), cl))

Error in colSums(w * x) : 'x' must be an array of at least two
dimensions

cl <- as.factor(y)

GS: a matrix with 0 or 1

GS: gene sets

-> a data matrix with rows=genes,

columns= gene sets,

GS[i,j]=1 if gene i in gene set j

GS[i,j]=0 otherwise

Hott2 <- function(x, y, var.equal=TRUE) #T2 hoteling

Y<- c(1,0,0,0,0,0,1,1,0,0,1,0,1,1,1,1,0,1,0,1)

Data=transpose(X)= gene expression: row=40 gene, column=10 sample

Data: there is in attachment file

Thanks a lot


-

On 12/27/2010 12:43 AM, leyla khodakarim wrote:
> Dear All
>
> It is very kind of you to guide me.
>
> When I want to run this line, I see this error
>
> stat.obs<- apply(GS, 2, function(z) Hott2(t(DATA[which(z==1),]), cl))
>
> Error in colSums(w * x) : 'x' must be an array of at least two
dimensions
>
> cl<- as.factor(y)
>
> GS: a matrix with 0 or 1
>
> GS: gene sets
>
> ->  a data matrix with rows=genes,
>
> columns= gene sets,
>
> GS[i,j]=1 if gene i in gene set j
>
> GS[i,j]=0 otherwise
>
> Hott2<- function(x, y, var.equal=TRUE) #T2 hoteling
>
> Y<- c(1,0,0,0,0,0,1,1,0,0,1,0,1,1,1,1,0,1,0,1)
>
> Data=transpose(X)= gene expression: row=40 gene, column=10 sample
>
> Data: there is in attachment file
>
Hi Leyla,
Your attachment didn't make it to the list, but the problem may be that 
which(z==1) reduces the matrix (array? data frame?) X to a vector. One 
other thing that looks funny is the capitalization. In R, X and x are 
different, as are DATA and Data. First thing is to just print out the 
data you are trying to analyze:

DATA[which(z==1)]

and see if it really is an array with at least two dimensions.

Jim