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Fig. 10 | BMC Bioinformatics

Fig. 10

From: iMAP: an integrated bioinformatics and visualization pipeline for microbiome data analysis

Fig. 10

PAM clustering, Silhouette analysis and visualization of clusters. The best number of clusters obtained by PAM clustering method using scaled abundance data for the OTUs (A1), phylum (B1), class (C1), order (D1), family (E1), and genus (F1). Silhouette analysis validates the consistency within PAM clusters where scores with a large Si width (almost 1) indicates high-quality clustering, a small Si width (around 0) means that the observation lies between two clusters while negative values are outliers. The right panel shows the exploratory ordination of the samples onto two axes (Dim1 vs Dim2) based on the abundance of OTUs (A2), phylum (B2), class (C2), order (D2), family (E2), and genus (F2). Similar samples are close to each other, and dissimilar samples are farther from each other

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