dump
Dump all kmers of an index as CSV, one row per kmer, with per-genome counts or presence.
obikmer dump INDEX [OPTIONS]
Arguments
| Argument | Description |
|---|---|
INDEX |
Index directory to dump |
Options
| Option | Default | Description |
|---|---|---|
--force-presence |
off | Output presence/absence (0/1) even if the index stores counts |
--debug |
off | Prefix each row with the partition and layer columns |
--head N |
none | Limit output to the first N kmers |
dump also accepts the shared predicate options (--ingroup, --outgroup, --min-count, etc.) to restrict which kmers are dumped.
Output is CSV on stdout.