Dear Sir/Madam, As you may know, we use amplicon based NGS to do whole genome sequencing of COVID-19 virus. Totally 100 amplicons are used to cover the whole genome of the virus. As you know, an amplicon contains two primers, namely forward and reverse primers. So 100 amplicons involve 200 primers.…

You can use ivar trim , which is also the tool we use in the GalaxyProject Covid-19 workflows . We also maintain primer scheme files to be used with this tool at Galaxy | Europe and at https://zenodo.org/record/5888324 . You might also be interested in this tutorial: Mutation calling, viral genome re…

primer trim by galaxy tools

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wm75 October 9, 2023, 1:44pm 5

Use the existing examples to guide you, I’d say

how to make a BED file

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primer trim by galaxy tools

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