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- prev.ordNMDS_data1 <- ordinate(data1_prev_norm, "NMDS", "bray") plot_ordination(data1_prev_norm,
- ordination = prev.ordNMDS_data1, color="Region") + theme_minimal() + geom_point(size=5)
- > ntaxa(mymensingh_all)
- [1] 44481
- > abund <- otu_table(mymensingh_all)
- > abund_ranks <- t(apply(abund, 1, rank))
- > abund_ranks <- abund_ranks - 20000
- > abund_ranks[abund_ranks < 1] <- 1
- > prev.ordNMDS_rank <- ordinate(abund_ranks, "NMDS", "bray")
- Error in ordinate(abund_ranks, "NMDS", "bray") :
- Expected a phyloseq object or otu_table object.
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