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waldronlab / curatedMetagenomicData

Curated Metagenomic Data of the Human Microbiome
https://waldronlab.io/curatedMetagenomicData
Artistic License 2.0
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How to compare my own cohort to your database? #266

Closed zckoo007 closed 2 years ago

zckoo007 commented 2 years ago

I have a study of metagenome, how can I integrate the analysis with your database?

I try to run metaphlan3 and huamann3 default parameters，But the result I got is not the same as yours, the relative abundance is too high.

Can you provide the parameters of metaphlan3 and humann3 so that we can compare our own cohorts with your database

Thanks!

schifferl commented 2 years ago

Hi @zckoo007, I am sorry it has taken so long to post a response – you can look at the parameters that are used in our Nextflow pipeline here. Hope that helps.