rarefy performs rarefaction on collections of placements.
usage: rarefy [options] placefile
| -o | Specify the filename to write to. |
| --out-dir | Specify the directory to write files to. |
| --prefix | Specify a string to be prepended to filenames. |
| --seed | Set the random seed, an integer > 0. Default is 1. |
| -n | The number of pqueries to keep per placefile. |
| --weight-as-count | |
| Interpret (integer) weights on pqueries as counts and sample without replacement. | |
Rarefaction with replacement, which is necessary because we allow floating point multiplicities.