gnomonicus

gnomonicus is a library providing functions which pull together output VCF of the Lodestone TB pipeline with a reference genome and a resistance catalogue, and utilise gumpy and piezo to produce variants, mutations and an antibiogram.

Provides a CLI script (bin/gnomonicus) which links these functions together to produce all outputs from the inputs. Makes the assumption that VCF files are named <GUID>.vcf