Anti-retroviral treatment

mmcleod89 commented 1 year ago

[ ] Triage ART and break it down into steps

mmcleod89 commented 1 month ago

Look at long_acting_treatment branch of SAS (https://github.com/UCL/hiv-modelling/blob/long_acting_treatment/hiv_synthesis_laa_w.sas) to include len and cab o_drug means on that drug e.g. o_len

mmcleod89 commented 1 month ago

c_mutation means in majority virus ("circulating")
e_mutation present (majority or not)

see * LOSS OF TRANSMITTED RESISTANCE MUTATIONS FROM MAJORITY VIRUS ("LOSS OF PERSISTENCE"); for how it goes from majority to minority.

If a mutation is acquired in transmission then it starts in the majority virus. The mutation variable without c_ or e_ is used in a few ways; initially it is set to mutation_p i.e. whether the transmission partner has the virus, which indicates the possibility of mutation transmission, and afterwards can be set to 0 if not transmitted and after that point indicates that the transmission of mutation did happen. It seems like it might also be used in other ways?

UCL / hivpy

Anti-retroviral treatment #83