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Help manipulating 23andme data in R - reproducing relationship results

5 messages · Lyle Warren, Jeff Newmiller, Bert Gunter +1 more

Lyle Warren
# 
Hi,

I'm trying to replicate 23andMe's parentage test results within R, using
the 23andme raw data. Does anyone know a simple way to do this? I have read
the data with gwascat and it seems to be in there fine.

Thanks for any help you can give!

Cheers,

Lyle
1 day later
Jeff Newmiller
# 
This is a very domain-specific question (genetic data analysis), not so much a question about how to use R, so does not seem on topic here. I also suspect that the company 23andme may use some proprietary algorithms, so "replicating their results" could be a tall order. 

You might start with the CRAN "Statistical Genetics" task view, and a textbook on the subject. The Bioconductor project may also be a useful resource. 
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On May 16, 2015 6:53:46 AM PDT, Lyle Warren <lyle00 at gmail.com> wrote:
Bert Gunter
# 
(No response necessary)

What struck me about this post was the apparent mismatch: the OP
seemed not to have a clue where to begin. Maybe he somehow has been
assigned or chose a task for which his skills and background are
inadequate. This is not really a criticism: if someone told me to make
a dining room set, my reply would be: "Either find someone else or see
you in about a year after which I may have learned enough to attempt
the task. "

So maybe the OP should give up looking for internet advice altogether
and find someone local to work with?

And, of course, apologies if I have misinterpreted.

Cheers,
Bert



Bert Gunter
Genentech Nonclinical Biostatistics
(650) 467-7374

"Data is not information. Information is not knowledge. And knowledge
is certainly not wisdom."
Clifford Stoll




On Sun, May 17, 2015 at 9:52 AM, Jeff Newmiller
<jdnewmil at dcn.davis.ca.us> wrote:
Lyle Warren
# 
Thanks Jeff, Bert!

You are right - definitely out of my skill area.. I've no found some help
on the bioconductor mailing list.
On 18 May 2015 at 03:04, Bert Gunter <gunter.berton at gene.com> wrote:

            

      
      
      
    

        

      
      
    

            

      
      
      
    

        

      
      
    

        

      
      
    

        

  
  


  


      

    

    

      
      

        


  

        

      Martin Morgan
    

    

      
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On 05/17/2015 01:52 PM, Lyle Warren wrote:

            

      
      
      
    

        
I'm not sure that you've asked in the right place

   https://support.bioconductor.org

see also http://www.vincebuffalo.com/2012/03/12/23andme-gwascat.html which is a 
little dated and maybe not relevant to your question.

A little tangentially, see also https://support.bioconductor.org/p/67444/

Martin Morgan