Figure 6.

Whole-genome view of aberrations in the follicular lymphoma data. The plot is based on all 100 biopsies, and aberrations were defined as copy number estimates above 0.05 (for gains) or below -0.05 (for losses). Aberration frequencies are shown in red for gains and green for losses. Correlations between the copy number activity at different genomic locations are shown as arcs (blue for positive correlations and yellow for negative correlations), using a correlation threshold of ±0.68 to determine which correlations to display. Aberration frequencies are based on the segmentation found with single sample PCF (with γ=16 and kmin=3), while correlations are based on the segmentation found with multi-sample PCF (with γ=6). The plot was created with the function plotCircle in copynumber.