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Thank for the reply. I am running this code:
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A few options are described in this post
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That you have a varying number of replicates is not ideal ([see here why][1]), but manageable. See for example the [Specific experimental d…
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OK, in that case it should be even easier as its just a single pairwise alignment, so the same advice holds.
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This is related to that other question but for now, the only thing I'm interested in is separating the three unique chromosomes, without as…
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thx for the explanation.
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Thank you, I'll check out Quast!
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