Get mutations from BN and identify resistance

[jonbra]

Pros:
The analysis is automatically executed every time a new sample is analysed.

Cons:
May require a lot of extra work just to implement in the routine.
Difficult to re-run or update if new resistance mutations/data is released.

[jonbra]

Simply create lists of mutations in NSP5, with Stanford-compatible numbering.

Match these against the stanford mutations.

[jonbra]

• Read the ORF1a (nsp5) and PRF1b (nsp12) mutations directly from BN
• Convert these mutations to Stanford nomenclature (already have code for) and and store these in separate columns for nsp5 and nsp12.
• Match the nsp5 and nsp12 columns with the resistance mutations provided by Stanford (see How to get the latest data from Stanford? #2).