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vpc-ccg / haslr

A fast tool for hybrid genome assembly of long and short reads
GNU General Public License v3.0
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Set coverage to use all #7

Closed mbhall88 closed 4 years ago

mbhall88 commented 4 years ago

Is it possible to specify that you don't want to subsample to a certain coverage?

I can obviously set --cov-lr to something huge, but is there something like setting it to 0 to tell it to just use all?

haghshenas commented 4 years ago

So far there is no option to do that. I'll work on this to add an option to make things more convenient.

haghshenas commented 4 years ago

I implemented your suggestion. The latest commit should use all long reads when --cov-lr is set to 0.

Thanks for the suggestion.

conchoecia commented 4 years ago

Thanks for implementing that, and for writing the software, @haghshenas. Just came by to point out that this change is not yet on the conda version. I was able to get --cov-lr 0 to work when I installed from github though.