Dear all,
I did not find information regarding the calculation of the broad values in the file “broad_values_by_arm.txt” gistic output.
This file reports the cnv for each arm however I do not understand how these values could be further manipulated. Are these values the averages of the segments corresponding to the regions, and therefore we can apply the same thresholds applied in the first phase of the analysis to call amplification and deletions, or they should be intended differently?
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