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FrederickHuangLin / ANCOMBC

Differential abundance (DA) and correlation analyses for microbial absolute abundance data
https://www.nature.com/articles/s41467-020-17041-7
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Models used for DA and binomial outcomes #245

Open aimirza opened 9 months ago

aimirza commented 9 months ago

What statistical tests do you use for DA at each taxon between 2 groups to test for significance? Where a taxon is the explanatory variable and the two groups are the outcome variable. For example, do you use Logistic regression via glm? IF you use logistic regression, it it possible to get the log odds ratio similar to the output from glm(..., family="binomial")?

Maggie8888 commented 1 month ago

You may refer to the link https://bioconductor.org/packages/release/bioc/vignettes/ANCOMBC/inst/doc/ANCOMBC2.html for more detailed explanation. We did not use glm framework.