yechengxi / SparseAssembler

A sparse k-mer graph based, memory-efficient genome assembler.

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Determining values for parameters

mictadlo opened this issue · comments

Hi,
How do I determine values for the following parameters?

  • NodeCovTh
  • EdgeCovTh
  • LD
  • PathCovTh

Thank you in advance.

Best wishes,

Mic

For the first run, LD must be 0, NodeCovTh 1 EdgeCovTh 0 are the default settings.
You may tune these values after your initial assembly, by setting LD 1 and change the rest values.