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Fig. 5 | Environmental Microbiome

Fig. 5

From: specificity: an R package for analysis of feature specificity to environmental and higher dimensional variables, applied to microbiome species data

Fig. 5

A EMP sample type ontology visualized as a cladogram. B Distribution of Spec values for ontological specificity of bacteria and archaea in the EMP data set. Within the cladogram, all brach-lengths are set to 1 for calculation of a cophenetic distance matrix, which is used as D when calculating Spec (Eqs. 1, 2). Numbers in parentheses are sample counts. An overwhelming majority of microbes within the EMP data set showed statistically significant specificity to sample type ontology (black), which was expected given the previously reported strong signal in clustering of community composition by sample type [26]. Very few microbes did not show significant specificity (gray)

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Environmental Microbiome

ISSN: 2524-6372