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rrwick / Trycycler

A tool for generating consensus long-read assemblies for bacterial genomes
GNU General Public License v3.0
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Is Trycycler appropriate for Metagenomes? #22

Closed cazzlewazzle89 closed 3 years ago

cazzlewazzle89 commented 3 years ago

Hi Ryan,

More of a question than an issue. I have assembled a a set of human faecal metagenomes using metaFlye with different min. overlap settings. Does it make sense for me to run these through Trycycler to attempt to get the best possible assembly instead of manually assessing which is the best (which I feel is always slightly subjective)? Would you expect metagenome complexity to cause an issue? Or perhaps the assemblies might all be a bit too similar since they were generated by the same algorithm with one different parameter?

Thanks, Calum

EDIT: Actually I just saw the metagenomes section in the FAQs. I should have read in a bit more detail before asking. Apologies 🙈

rrwick commented 3 years ago

No worries! I'll link to the relevant section here, in case anyone else finds this issue when trying to work with metagenomes: https://github.com/rrwick/Trycycler/wiki/FAQ-and-miscellaneous-tips#will-trycycler-work-on-metagenomes