Changing Minimum Sequencing Depth Parameter in artic-ncov2019

artic-network / artic-ncov2019

ARTIC nanopore protocol for nCoV2019 novel coronavirus

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Changing Minimum Sequencing Depth Parameter in artic-ncov2019 #90

Open laura-bankers opened 2 years ago

laura-bankers commented 2 years ago

Has there been any movement towards making min depth a configurable parameter to artic minion --medaka? Given all of the recent conversations in the public health community about the effects of minimum coverage depth for variant and consensus calling for SAR-CoV-2, it would be great if there was a more user friendly way to test how changes to workflow parameters (min depth in particular) influences our QC metrics and outputs from artic.

leocaserta commented 2 years ago

I wouls also be interested in customize this parameter if possible