The usage and help documentation of can be seen by running -h:

usage: - [-h] cutup_clustering_result

With contigs cutup with as input, sees to that the consequtive
parts of the original contigs are merged. prints result to stdout. @author:

positional arguments:
                        Input cutup clustering result.

optional arguments:
  -h, --help            show this help message and exit


An example of how to run concoct_output/clustering_gt1000.csv > concoct_output/clustering_merged.csv

This merges the clustering clustering_gt1000.csv created by concoct by looking at cluster assignments per contig part and assigning a concensus cluster for the original contig. The output clustering_merged.csv contains a header line and contig_id and cluster_id per line, separated by a comma.