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KevinMcDonnell6 / chordomics

Interactive visualisation and data annotation for meta-omics data
MIT License
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available for 16s rRNA microbiota dataset? #5

Open marwa38 opened 2 years ago

marwa38 commented 2 years ago

Hello

Could you please let me know if it is available for the 16s rRNA microbiota dataset?

Cheers Marwa

nickp60 commented 2 years ago

Hi @marwa38 , Chordomics is intended to visualize linked data, specifically the functional and taxonomic aspects of metagenome sequencing. With 16S, we only get the taxonomy, so out-of-the-box there is nothing to link and display.

That said, there are tools like Paprica that try to predict functional content from the taxonomic profile. I haven't run this directly so I can't advise at this point, but if you process your samples with paprica and send your metadata, taxonomy table, and the resulting functional table, I'd be happy to help figure out what reformatting might be needed for use with Chordomics