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Aquafort eDNA

OTU Abundance

For this barplot, change the ‘level’ dropdown to ‘6’. Use the other drop down to sort the columns (samples) by date, stocked/not-stocked, ect. Click on the square on the taxonomy key to visualized only selected taxa. Interactive barplots of relative abundance can be found here

Core diversity metrics

PCoA is performed on distance matrices for the metrics below (seems to better handle missing data than PCA does). More complete descriptions here: https://docs.onecodex.com/en/articles/4150649-beta-diversity

Descriptons Coming Soon…

phylo-empress

gemelli phylogenetic-rpca-with-taxonomy

Performs phylogenetic robust center log-ratio transform robust PCA and ranks the features by the loadings of the resulting SVD. One-way PERMANOVA: Determine whether groups of samples are significantly different from one another using a permutation-based statistical test. Tested here when grouping by pre- and post stocked, as well as tide. Test performed on the Aitchison distance of the sample loadings from RPCA.

beta-permanova-stocked

pairwise-beta-permanova-stocked

beta-permanova-tide