Fig 6. Centered-log ratio (CLR) abundance of pathway classes of particular interest between metagenomics (Humann2) and hidden-state prediction (HSP) methods (Paprica and Picrust2).
Classes of pathways with positive CLR were more prevalent at the pens while those with negative CLR were more prevalent at the reference sites.
Table 1 . Permutational analysis of variance of the taxonomic (amplicon sequence variant; ASVs) and functional communities between distance categories (pen versus reference sites) per methodology using 999 permutations. Significant responses (p.value ≤ 0.05) are displayed in bold.