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Question: DNA Copy CNA function , what do you pass to maploc argument?
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gravatar for Nikolas Balanis
3.3 years ago by
Nikolas Balanis30 wrote:
This is somewhat related to this question, I just want some more clarification on using the CNA function. This is probably very elementary, I apologize in advance https://stat.ethz.ch/pipermail/bioconductor/2007-September/019138.html >From an agilent data set the SystematicName column is composed of elements of the form chr3:175483690-175485000. So for example for this element the chromosome # is 3, so the vector of these #s for all elements is passed as chrom in the CNA function. But what is the position numeric passed to maploc in the CNA function? From the documentation the maploc argument is "the locations of marker on the genome. Vector of length same as the number of rows of genomdat. This has to be numeric." So it has to be numeric from the DNAcopy documentation. Is it the first value 175483690, the second value 175485000 , or the average of the two 175484345, or something else that I am missing completely? I cant seem to find any clarification on this anywhere. Nikolas Balanis [[alternative HTML version deleted]]
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