A system for evaluating difficult to assess regions that uses SV calls and mappability to generate a genome-wide score.

Contents:

• Generated DangerTrack scores:
  • dangertrack.bed.gz
  • dangertrack.bedgraph.gz
• Scripts:
  • prepare.sh - step 1 - prepare, clean, and bin the data
  • summarize.R - step 2 - combine and summarize binned data
• Inputs:
  • sv.1kg.bed.gz - 1000 Genomes Project breakpoints
  • sv.giab.bed.gz - Genome in a Bottle breakpoints

originally part of https://github.com/NCBI-Hackathons/Structural_Variants_CSHL