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zstephens / neat-genreads

NEAT read simulation tools
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Exact Coverage #51

Closed danablanc closed 4 years ago

danablanc commented 5 years ago

Hi,

How can I determine the exact coverage and no the average one using your tool?

Thanks for your attention!

zstephens commented 5 years ago

Greetings, can you clarify what you mean? Would you like the coverage to be more constant than it is with default GC% bias models? If that's what you mean I would be able to add an input argument that ignores the GC bias.

If you want the coverage to be identical at every position I don't think that is possible with the way the code currently works.

-Zach

zstephens commented 4 years ago

added "--force-coverage" input option in 2ea9720b6683aa1e1a84d206223219414302e810 which causes NEAT to ignore gc-bias and targeted capture regions. positional coverage will still fluctuate due to randomness in coordinate sampling.