Add info on coverage of all genes conferring resistance to each drug

[taranewman]

Include resistance gene coverage in output to provide context if absence of a mutation may be due to lack of coverage in resistance gene region

Currently, the pipeline outputs a resistance_gene_coverage.csv which outputs the percent of the gene coverage above the minimum depth threshold.

TBProfiler output contains a coverage report for the percent of bases in a gene that have 0 coverage and a missing positions report that shows what resistance mutations were detected but are below the minimum allele fraction threshold.

However, these outputs do not provide provide quick access to know what drugs are impacted from to lack of coverage in a resistance gene.

As a starting point to to address this, include summary metrics on whether all genes that confer resistance to a drug have full coverage.

[taranewman]

Fixed in #46