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zdk123 / SpiecEasi

Sparse InversE Covariance estimation for Ecological Association and Statistical Inference
GNU General Public License v3.0
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treatment of metagemoic data for virus + metabarcoding 16S data for bacteria #229

Closed yannreynaud closed 1 year ago

yannreynaud commented 1 year ago

Hi, I work on two datasets generated separately : Metagenome assembled genomes for virus, and 16S for bacteria. I would like to know if spieceasi can be applied to this kind of analyses with combined datasets to explore co-occurrence of virus vs bacteria? Thanks in advance Yann

zdk123 commented 1 year ago

Have they been measured in the same samples?

See: https://github.com/zdk123/SpiecEasi#cross-domain-interactions

yannreynaud commented 1 year ago

Thanks for your answer. I obtained a network, but the figure is pretty hard to interpret. Is there a way to export connected taxa as a table format?

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