Convert a pplace object to a taxonomy table
pplace_to_taxonomy(pplace,taxonomy,
rank=c("phylum","class","order","family","genus","species"),
type="all",tax_name=TRUE,run_id=NULL)A pplace object
The taxonomy table as obtained using the refseq fonction with type set to taxonomy
The desired rank for the taxonomy table
Wether all the possible classification available in the multiclass table are outputed (type="all") or only the best (type="best")
Wether to use taxonomy names (default) or tax_id number
A vector of run_id to subset
A matrix with taxonomic ranks for each sequence