I am trying to remove samples from my
otu_table in a phyloseq object
ps . This is so I can match the samples in my
sample_data (which does not have the samples stated below as I removed them due to NAs). I'm using this:
to_remove <- c("Sample1", "Sample5", "Sample10", "Sample30") # using z first to see if it works z <- prune_samples(ps@otu_table, !(sample_names() %in% to_remove))
but I get an error:
# Error in (function (classes, fdef, mtable) : unable to find an inherited method for function ‘prune_samples’ for signature ‘"otu_table", "logical"’
How do I fix this?