Thank you for your really nice job @jbisanz , this library is very useful!
But when I try to import my files and create a phyloseq object it return me an Error
If I run:
physeq<-qza_to_phyloseq( features="aedes_h2o_host.qza", tree="rooted-tree_h2o_host.qza", "taxonomy_h20_host_138vsearch.qza", metadata = "map_aedes_h2o_host.tsv" )
Error in parse_taxonomy(taxonomy) :
Table does not match expected format (conames(obj) are Feature.ID, Taxon, Confience)
that’s because my taxonomy file have as colnames:
 “Feature.ID” “Taxon” “Consensus”
I think because I use Vsearch plugin.
I fix importing taxonomy qza and changing the colnames as:
‘names(taxonomy$data)[names(taxonomy$data) == “Consensus”] <- “Confidence”’
I hope that could be useful for other people
Thank again for everything