Table 3.

Comparison of methods

For the variable chromosomes, the correlation between different methods was determined, whereas for the uniform chromosomes the average absolute difference (Abs. diff.) was used because in this case the optimal correlation would be around zero. The values are shown as median ± median absolute deviation (mad). The first column shows the comparison between fresh frozen samples and FFPE samples both using BeadArrays; the second column shows the comparisons between the frozen samples of two replicate arrays, where one of the arrays turned out to have low average intensities. The last three columns show pairwise comparisons of the three copy number technologies on fresh frozen tissue.