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Have you tried shovill on yeast size or aspergillus size genomes? #48

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MichaelFokinNZ opened this issue Oct 19, 2017 · 2 comments
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Have you tried shovill on yeast size or aspergillus size genomes? #48

MichaelFokinNZ opened this issue Oct 19, 2017 · 2 comments
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@MichaelFokinNZ
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MichaelFokinNZ commented Oct 19, 2017 •
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What is the largest haploid genome size shovill can deal with?
@andersgs
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No idea. But we would love to hear your experience with it. You may have to fiddle with RAM, though. I would say there are likely better assemblers for these larger genomes. Check out the Assemblathon 2 paper here for some ideas.

Good luck, and if you do try shovill with fungus, please let us know.

@tseemann tseemann self-assigned this Feb 23, 2018
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If you can assemble it with Spades, you can assemble it with Shovill.

Fungus up to 50 Mbp should be ok.

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