Creating new database - Githubissues

xinehc / melon

Melon: metagenomic long-read-based taxonomic identification and quantification using marker genes

MIT License

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Creating new database #1

Open humbleflowers opened 3 months ago

humbleflowers commented 3 months ago

Hello Developers,

Thank you for melon,

I am working on nanopore shotgun metagenomics data and i am using melon.

I want to include fungii and virus genomes as well in the analysis as currently, your database supports only prokaryotes(bacteria and archaea) as far as i understand.

Is there a way to construct custom database? Can you share me command?

Thank you.

xinehc commented 3 months ago

Hi,

unfortunately Melon cannot classify fungi/virus as it is built on prokaryotic marker genes.

You may consider using non-marker profilers like Kraken2/Centrifuger for non-prokaryotes.

humbleflowers commented 3 months ago

Thank you @xinehc

Maiya19724 commented 3 months ago

Perhaps you could give Metabuli a try. @humbleflowers