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DrawDepth

Create read depth/copy number panel GGP and add breakpoint predictions

See N_DrawBreakpoint and the developer guide for details about plotting.

  • 1_make_depth_ggp.sh Create GGP with read depth as scatter plot
    • Can plot read depth (RD), copy number, or log(RD/average(RD))
  • 2_add_CBS.sh Add red lines indicating "average" read depth based on circular binary segmentation
  • 3_add_PindelRP.sh Add Pindel breakpoint positions
  • 4_add_Discordant.sh Add Discordant breakpoint positions (scattered along vertical axis)
  • 5_add_Contig.sh Add Contig breakpoint positions