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enhancementNew feature or requestNew feature or requestpaperWould be nice to get done before submitting this somewhereWould be nice to get done before submitting this somewhere
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Probably the easiest solution is adding a boolean flag rna when creating a DotPlotMatrix (defaulting to False). If this is True, then the code should just work as normal but replace T with U. If either of the input sequences contain a T then this should cause an error, same as how (currently) if either of the input sequences contain a U then this causes an error.
Edit: actually, it would be even better to just add a flag called seq_type or something that can be one of {dna, rna, protein} or something. It should default to dna and result in the current validation behavior. We can just save this as a property of the matrix object -- will make the code easy to interpret.
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enhancementNew feature or requestNew feature or requestpaperWould be nice to get done before submitting this somewhereWould be nice to get done before submitting this somewhere