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Post processing steps after SALSA #128

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pubudumanoj opened this issue Feb 8, 2021 · 1 comment
Open

Post processing steps after SALSA #128

pubudumanoj opened this issue Feb 8, 2021 · 1 comment

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@pubudumanoj
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I ran SALSA and got the final fasta file. However, there are about 3000 scaffolds.

  1. Is there a way to improve this to a chromosome level scaffold. How we can measure the quality of the scaffolding?
  2. How we can generate some statistics other than stats from quast.
  3. I created a hic file and visualized it using Juice box. But is there a way to correct misassemblies?
@ghuryejay
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  1. Improving scaffolding is an open research question.
  2. What kind of statistics you are looking to generate?
  3. Currently we don't support misassembly correction for SALSA2 output through juicebox.

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@ghuryejay @pubudumanoj