Add k13 348#202
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…n reference built from pools
Remove testdata from repo and alter path in help message
temporary fix for cutadapt, two rounds, seconf is a for loop
update mismatch to 0 when merging in dada2
…in_outputs Report full pool name in outputs if shorthand used
update sequencer to optional gtrim param
Add panel information for AMPLseq
Feature/add spotmalaria panel
add csp markers from andres' branch to principal list
update help message
Update readme
…_outputs update resmarker column names to match plasmogenepi pipeline and be snake case
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