"group"
file. This function is made accessible to phyloseq
users for troubleshooting and inspection, but the
link{import_mothur()} function is suggested if the
goal is to import the OTU clustering results from
mothur into phyloseq.
import_mothur_otulist(mothur_list_file, cutoff=NULL)"unique"), that matches one of the
cutoff-values used to produce the OTU clustering results
contained within the list-file created by mothur.
The default is to take the largest value among the cutoff
values contained in the list file. If only one cutoff is
included in the file, it is taken and this argument does
not need to be specified. Note that the cluster()
function within the mothur package will often
produce a list file with multiple cutoff values, even if
a specific cutoff is specified. It is suggested that you
check which cutoff values are available in a given list
file using the show_mothur_cutoffs
function.cutoff.
show_mothur_cutoffs,
import_mothur