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artic-network / rampart

Read Assignment, Mapping, and Phylogenetic Analysis in Real Time
GNU General Public License v3.0
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Inclusion Native Barcoding 96 Expansion barcodes (ONT) #83

Closed menickname closed 1 year ago

menickname commented 3 years ago

Dear

We have been running the nCoV-2019 protocol for a while and have recently changed to the ONT Native Barcoding 96 Expansion barcodes. However, currently these seem not to be supported when running Rampart as indicated. Are there any plans on a new release of the nCoV-2019 for Rampart or do you have any suggestions how this could be (easily) solved?

Thank you in advance. Best regards, Nick Vereecke

danieljbridges commented 3 years ago

This would be a great addition. Am guessing it is a matter of updating some configuration files?

nickloman commented 3 years ago

We now recommend using MinKNOW in-built demultiplexing (ensure you use the "two barcodes required" option for amplicon work!) and pointing RAMPART to the output folder.

Psy-Fer commented 3 years ago

Hey @nickloman , does that mean RAMPART will visualise the 96 samples if done this way? or is it still limited to 24?

If it will show the 96, then that means the change would be on the porechop side, rather than RAMPART itself.

nickloman commented 3 years ago

Yes, it will work assuming the barcode directories are created somehow.

Psy-Fer commented 3 years ago

Brilliant.

rambaut commented 1 year ago

Closing. RAMPART no longer does its own demuxing.