filter_rep_set.py

Step 2 of the condensing process. Filter the representative sequence set to include only those sequences that map to unique OTUs.

usage: filter_rep_set.py [-h] -r REP_SET_FN -u UNIQUE_OTUS_FN [-o OUTPUT_FILTERED_REP_SET_FN] [-v]

Required arguments

-r REP_SET_FN, --rep_set_fn REP_SET_FN

The set of representative sequences.

-u UNIQUE_OTUS_FN, --unique_otus_fn UNIQUE_OTUS_FN

The condensed assigned taxonomy file.

Optional arguments

-o OUTPUT_FILTERED_REP_SET_FN, --output_filtered_rep_set_fn OUTPUT_FILTERED_REP_SET_FN

The filtered representative set. By default outputs to condensed_rep_set.fna

-h, --help

Show the help message and exit

-v, --verbose

Print detailed information about script operation.