tbtAMR implements TB-profiler and custom logic developed at MDU to identify mutations linked to AMR mechanisms in M. tuberculosis and generate reports suitable for public health in Victoria. It may also be suitable for use in research settings.
tbtAMR is now accredited to ISO15189 standard by NATA for use in Victoria Australia.
In order to install tbtAMR conda is strongly recommended - installation instructions can be found here.
conda create -n tbtamr tbtamr xlsxwriter requests tqdm
Once you have installed tbtAMR you will need to setup the environment. This will install the validated version of TB-profiler, if you wish to use another version of TB-profiler you may get unexpected behaviour or errors.
conda activate tbtamr
tbtamr setup
tbtamr check
See our wiki page for further information on tbtamr usage.