rarefy¶

rarefy performs rarefaction on collections of placements.

usage: rarefy [options] placefile

Options¶

`-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.