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add how to run on other species
add note to install/update panels
typo
link to page: Mycobacteria taxonomy and names
note that citations also for the panels
update CLI usage
remove all old unwanted stuff
add link to genotyping page
remove parts of old readme that have been rewritten
link to background variants page
link to custom lineage calling page
add link to amr predict output page
tweak to rewrite description
update citation
tidy up example reads, plus general tidying
add quick start
link to built in panels page
link to new AMR calling page and remove predict usage
start reorganising the help, linking to new wiki pages
Copy readme from master branch here as starting point
Initial Home page