Question: Beta values to copy number variation (CNV)
1
gravatar for Tanvir Ahamed
2.0 years ago by
Sweden
Tanvir Ahamed 260 wrote:

For 450k data,

     1) one can get CNV form .idat file 

     2) one can get M values or  beta values .idat file 

But i am interested to get CNV form the beta values (GSE50025-GPL13938_series_matrix.txt) , if this is possible .

Any help will be appreciated. 

Thanks !! 

methylation • 810 views
ADD COMMENTlink modified 2.0 years ago by Matt Shirley8.2k • written 2.0 years ago by Tanvir Ahamed 260
0
gravatar for Matt Shirley
2.0 years ago by
Matt Shirley8.2k
Cambridge, MA
Matt Shirley8.2k wrote:

You will not be able to get CNV state from beta values - for that you'll need to get the idat files with probe intensities and use something like Epicopy to normalize and segment on the intensities.

ADD COMMENTlink written 2.0 years ago by Matt Shirley8.2k

Thanks Matt !! i was wondering , if that is some how possible !! :( But no hope. 

ADD REPLYlink written 2.0 years ago by Tanvir Ahamed 260
Please log in to add an answer.

Help
Access

Use of this site constitutes acceptance of our User Agreement and Privacy Policy.
Powered by Biostar version 2.3.0
Traffic: 523 users visited in the last hour