[BioC] passing my data to siggenes package

Sean Davis sdavis2 at mail.nih.gov
Wed Oct 26 13:43:58 CEST 2005

On 10/26/05 6:53 AM, "madhurima bhattacharjee"
<madhurima_b at persistent.co.in> wrote:

> Hello Sean,
> Thanks for the response.
> Given below is the part of the  code and the error that I am getting:
>> sam.out <- sam(madhu1,my.cl)
> Error in fudge2(r, s, alpha = s.alpha, include.zero = include.zero) :
>       For the computation of the fugde factor,
> there should be at least 25 genes with differing standard deviations.
> Here madhu is the matrix and my.cl is the class vector.
> What is the problem with the data?
> Could you please tell me how to solve this.

I don't use siggenes often enough to know if this message means more than it
says, so I can't be sure.  But, what does madhu look like?  How did you make
that matrix?  The error message is implying that there are very few genes
that show any variation.  Perhaps someone who uses siggenes more often can
be more specific.


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