Entering edit mode
3.8 years ago
donny.dw
▴
20
We are using DNAcopy to analyze SNP 6.0 array. What data type is used for input of DNAcopy (column Coriell.05296 and Coriell.13330)? Is it signal intensity value after normalization?
> > data(coriell)
> > coriell
> Clone Chromosome Position Coriell.05296 Coriell.13330 1 GS1-232B23 1 0 NA 0.207470 2
> RP11-82d16 1 468 0.008824 0.063076 3
> RP11-62m23 1 2241 -0.000890 0.123881 4
> RP11-60j11 1 4504 0.075875 0.154343 5
> RP11-111O05 1 5440 0.017303 -0.043890
I checked the manual. It says the data is a vector or matrix of data from array-CGH, ROMA, or other copy number experiments. But it does not tell me what type of data.
Can I suggest you checkout the reference from where that dataset came from and see if they have normalised the dataset? https://www.nature.com/articles/ng754/_S1
Let me know if you need access to the article