What data type is used for input of DNAcopy
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12 months ago
donny.dw ▴ 10

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.

DNAcopy CNA • 358 views
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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

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