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I'm working with skin microbiome, and want to see differences between sampling years.
I started with a phyloseq object ps but I don't understand how to interpret some of the columns from the output
I understand that lfc is the log fold change, p_Year is the pvalue associated with it, but what's the meaning diff_Year, passed_ss_intercept and passed_ssYear mean? These say TRUE or FALSE, so diff_Year specifies if the difference is true or false according with the pvalue? So I should interpret that as a taxa that it's diff is FALSE means that doesn't have a differential abundance in Year 2023 with respect to year 2022 according to a value of p<0.001?
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I'm working with skin microbiome, and want to see differences between sampling years.
I started with a phyloseq object ps but I don't understand how to interpret some of the columns from the output
output<-ancombc2(ps,assay_name="counts", tax_level="Genus", fix_formula="Year", group="Year")
res_prim=output$res
res_prim
I understand that lfc is the log fold change, p_Year is the pvalue associated with it, but what's the meaning diff_Year, passed_ss_intercept and passed_ssYear mean? These say TRUE or FALSE, so diff_Year specifies if the difference is true or false according with the pvalue? So I should interpret that as a taxa that it's diff is FALSE means that doesn't have a differential abundance in Year 2023 with respect to year 2022 according to a value of p<0.001?
Also, is it correct to hace NA in the intercepts?
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