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dfguan / purge_dups

haplotypic duplication identification tool
MIT License
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Having issues setting the manual cut off #147

Open ericgonzalezs opened 3 months ago

ericgonzalezs commented 3 months ago

Hi,

I have been reading many issues here, but it is still not clear to me how to set the manual cutoffs. I have a nanopore assembly. By running your pipeline, I got this:

PB cov

The original busco score is this:

image

If I use the automatically detected thresholds, I get this:

image

And if I use manual tresholds like this: 10 19 19 20 20 240

I get these busco scores.

image

I am not sure which could be the best manual thresholds for this assembly, any help would be really appreciated.

ericgonzalezs commented 1 month ago

Any help on this would be awesome.