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baoe / AlignGraph

Algorithm for secondary de novo genome assembly guided by closely related references
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Reference Genome for Eukaryotes #33

Open GabrielaPinho opened 6 years ago

GabrielaPinho commented 6 years ago

Dear Bao,

I want to extend the scaffolds of an Eukaryote assembly, I have the reads and the scaffolds of my focus species, and would like to know how the reference genome should be organized. Should I join all the reference chromosomes to input it in AlignGraph?

Thank you, Gabi

baoe commented 6 years ago

Hi, Gabi,

Sorry for reply late. I don't think you need to join all the reference chromosomes. You can put them in the same file and run AlignGraph. AlignGraph processes them one by one.

Bao