How to plot CNV frequency for large cohort data after GISTIC2 analysis?
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22 months ago
MatthewP ★ 1.0k

Hello, Supplementary Fig. 1 of this paper shows overall cnv frequency for large cohort.

plot_link

After running gistic2 we get gene region and amp/del frequency, I think this is data needed for such plot. But I don't have much R plot experience(knowing some ggplot2), I think density plot maybe one method. But other problems such as gives different background color for different chroms, such as merge different groups' plot. Dose anyone have such experience? Some guides will be very helpful and thankful, no matter very detail or not.

BTW, I don't think I need to plot genome position here, just sort regions and plot them one by one. Thanks.

gistic2 cnv plot • 704 views
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