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10x genomics read simulator

This method simulates 10x genomics reads in the following steps:

  1. It simulates haplotypes introducing SNPs and SVs
  2. It generates the fragments from the haplotypes and assigns barcodes
  3. It uses a modified version of dwgsim to simulate illumina reads per fragment

DangerTrack: A scoring system for difficult to assess regions.

This method uses various information such as SVs calls and mapability to generate a score for every 5 kb region.

DangerTrack has been moved to its own repository: