A KvarQ testsuite for MTBC SNP barcodes
Please see the KvarQ documentation, especially the tutorial section for more information
All data is taken from:
"A robust SNP barcode for typing Mycobacterium tuberculosis complex strains" -- Coll et al (2014) doi: 10.1038/ncomms5812
The file coll14.tsv contains the SNPs described in the paper above.
The script _summarize.py generates an overview table from scan
results, including average coverage of every SNP, and a grid-like
listing of which SNPs occured in which genomes as derived, ancestral,
and mixed.