Usage: sga cluster [OPTION] READS
Extract clusters of reads belonging to the same connected components.

  -v, --verbose                        display verbose output
      --help                           display this help and exit
      -o, --out=FILE                   write the clusters to FILE (default: clusters.txt)
      -c, --min-cluster-size=N         only write clusters with at least N reads (default: 2)
      -x, --max-cluster-size=N         abort the search if the cluster size exceeds N
      -m, --min-overlap=N              require an overlap of at least N bases between reads (default: 45)
      -e, --error-rate                 the maximum error rate allowed to consider two sequences aligned (default: exact matches only)
      -t, --threads=NUM                use NUM worker threads to compute the overlaps (default: no threading)
          --extend=FILE                extend previously existing clusters in FILE

Report bugs to js18@sanger.ac.uk