Hello, I could use some help.
I would like a Grow Contigs Workflow that does a Map to Reference to a linear contig that generates a consensus sequence and then it follows up with a new Map to Reference using the consensus of the last as the reference and the reads of the first again (or the unused reads of the first), this would go on ad infinitum or a predetermined number of times.
Before anyone says that increasing iterations of a Map to Reference would do that, it doesn`t work like that at all, although it says it would. An assembly may do that but it takes too long without guidance.
I have tried to generate a workflow using the workflow wizard, but after the first mapping it fails to automatically detect a reference sequence for the second mapping. I have little knowledge of Java coding to be able to program it, although it seems simple enough.
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