R help - Mar 2012 - substituting own test statistics in a built-in function

Hi All

I would like to compute the raw p-value from permutation tests and I found
mt.sample.rawp() from the package multtest almost similar to what I want to
do. But in the function definition:

mt.sample.rawp(V,classlabel,test="t",side="abs",fixed.seed.sampling="y",B=10000,na=.mt.naNUM,nonpara="n")
 
I would like to choose my own t-test which is designed using my model
parameters, so it is like a modification of t-test. I would like to use this
t-test instead of the ones in the list.  I am not sure if this can be done.
Can anyone tell me how to do it, if it is possible.

the other way I tried is to copy the function and and modify it. But it uses
internal functions from the package like mt.checkothers() which I do not
know perform what kind of function. I tried to access its function
definition, but I was not able to do so. is there some other way I could see
what these internal functions do, so that I could possibly try to use the
same logic and write the code. 

Appreciate all help. Thanks a lot :)

Regards
Ap

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Hi,
On Mar 15, 2012 4:28 AM, "Aparna Sampath"
<aparna.sampath26@gmail.com>
wrote:
>
> Hi All
>
> I would like to compute the raw p-value from permutation tests and I found
> mt.sample.rawp() from the package multtest almost similar to what I want
to
> do. But in the function definition:
>
>
mt.sample.rawp(V,classlabel,test="t",side="abs",fixed.seed.sampling="y",B=10000,na=.mt.naNUM,nonpara="n")
>
> I would like to choose my own t-test which is designed using my model
> parameters, so it is like a modification of t-test. I would like to use
this
> t-test instead of the ones in the list.  I am not sure if this can be
done.
> Can anyone tell me how to do it, if it is possible.
>
> the other way I tried is to copy the function and and modify it.
Indeed, that's the way to customize functions.
> But it uses
> internal functions from the package like mt.checkothers() which I do not
> know perform what kind of function. I tried to access its function
> definition, but I was not able to do so. is there some other way I could
see
> what these internal functions do, so that I could possibly try to use the
> same logic and write the code.
If you download the package source from CRAN, you'll have all of it,
including any comments that have been stripped out.
> Appreciate all help. Thanks a lot :)
>
> Regards
> Ap
>
Sarah

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