The usage and help documentation of
merge_cutup_clustering.py can be seen by
usage: - [-h] cutup_clustering_result With contigs cutup with cut_up_fasta.py as input, sees to that the consequtive parts of the original contigs are merged. prints result to stdout. @author: alneberg positional arguments: cutup_clustering_result Input cutup clustering result. optional arguments: -h, --help show this help message and exit
An example of how to run
merge_cutup_clustering.py 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.