NAME

       ecodbtaxstat - description of ecodbtaxstat

       The  ecodbtaxstat  command  requires an ecopcr database and a taxonomic rank (specified by
       the --rank option, default species).  The  command  outputs  first  the  total  number  of
       sequence  records  in the database having taxonomic information at this rank, and then the
       number of sequence records for each value of this rank.

ECODBTAXSTAT SPECIFIC OPTION

       --rank=<TAXONOMIC_RANK>
              The taxonomic rank at which frequencies have to be computed.  Possible values are:

                 · class

                 · family

                 · forma

                 · genus

                 · infraclass

                 · infraorder

                 · kingdom

                 · order

                 · parvorder

                 · phylum

                 · species           (default)

                 · species group

                 · species subgroup

                 · subclass

                 · subfamily

                 · subgenus

                 · subkingdom

                 · suborder

                 · subphylum

                 · subspecies

                 · subtribe

                 · superclass

                 · superfamily

                 · superkingdom

                 · superorder

                 · superphylum

                 · tribe

                 · varietas

TAXONOMY RELATED OPTIONS

       -d <FILENAME>, --database=<FILENAME>
              ecoPCR taxonomy Database name

       -t <FILENAME>, --taxonomy-dump=<FILENAME>
              NCBI Taxonomy dump repository name

       --require-rank=<RANK_NAME>
              select sequence with taxid tag containing a parent of rank <RANK_NAME>

       -r <TAXID>, --required=<TAXID>
              required taxid

       -i <TAXID>, --ignore=<TAXID>
              ignored taxid

ECODBTAXSTAT USED SEQUENCE ATTRIBUTES

          · taxid

AUTHOR

       The OBITools Development Team - LECA

COPYRIGHT

       2019 - 2015, OBITool Development Team

 1.02 12                                   Jan 28, 2019                           ECODBTAXSTAT(1)