I’m trying to partitionning the beta diversity of a phyloseq object.
With presence absence it is working on beta.pair but when i’m lunching beta.pair.abund i get this message Error in as(x, "matrix")[i, j, drop = FALSE] : (subscript) logical subscript too long.
I tried with a subsample of my community matrix and it is working.
Can you help me with this error ?
`# Extract the OTU table as a matrix
community_data <- as.matrix(t(otu_table(ENR_ab)))
Multiple-site dissimilarities
beta_ms <- beta.pair.abund(community_data, index.family = “bray”)`
community_data is a matrix where the column are sites and rows are OTU species.
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