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hanfang / Topsorter

Graphical assessment of structrial variants using 10x genomics data
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Topsorter for misassemblies #12

Closed dcopetti closed 6 years ago

dcopetti commented 6 years ago

hello, I am wondering if I could use Topsorter to detect misassemblies in my scaffold-level diploid assembly (produced from PE, MP and 10x data by NRGene), in particular with the caveat that I would be using the same 10x data that built the scaffolds. If it won't work, do you have any idea of what I could use? Thanks, Dario

fritzsedlazeck commented 6 years ago

Hi Dario, I am sorry but this project is not ready yet and needs some further development and testing.

You can check out Assemblytics or other methods for quality assessment of your scaffolds. However, it gets very tricky since you have a diploid genome. I hope that helps Fritz