10x genomics read simulator
This method simulates 10x genomics reads in the following steps:
- It simulates haplotypes introducing SNPs and SVs
- It generates the fragments from the haplotypes and assigns barcodes
- 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: https://github.com/NCBI-Hackathons/DangerTrack