Ragout

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Ragout is incompatible with Python 3.10

1

Are there any updates coming? Ragout is incompatible with Python 3.10. Specifically, Python 3.10 does not have Mapping class in the collections module.

aminakur

When scaffolding against a high quality reference, what do outputs of "hybrid" scaffolds most likely indicate?

4

I am scaffolding several ONT+illumina assemblies (flye) against a T2T reference genome of a sister species. Each of my assemblies represents a specific strain of my species of interest--so while...

DaRinker

Best practices question--is "overfiting" to the reference sequence a problem?

3

I have 20 de novo hybrid genome assemblies (ONT plus Illumina; flye plus pylon polishing) of different strains of the same species. For an initial genome reference, we also have...

DaRinker