lengths.report: Return the lengths of all loci in a pyRAD.loci object
In RADami: Phylogenetic Analysis of RADseq Data

Description Usage Arguments Details Value Author(s) See Also Examples

Return the lengths of all loci in a pyRAD.loci object

1
2
3

lengths.report(dat, numtodo = 10,
               reportInterval = 2000,
               high.mem = TRUE)

`dat`	an object of class `pyRAD.loci`
`numtodo`	an integer specifying how many loci to return the length of
`reportInterval`	how many loci between reports of time required to complete when using `high.mem` = `FALSE`
`high.mem`	forces the code to loop through instead of using `sapply`

Called by summary.pyRAD.loci, and thus not ordinarily needed by users. If looping is used to get lengths, the function runs very slowly, and reportInterval can be useful. In early tests, I was having memory allocation issues, so high.mem was useful. I haven't needed it since then, but maybe you will.

A named vector of class integer, with names corresponding to loci whose lengths are returned

Andrew Hipp

read.pyRAD, summary.pyRAD.loci

  data(oak.rads)
  lengths.report(oak.rads, -1) # returns all loci
  lengths.report(oak.rads, 20) # returns only the first 20 loci
  identical(oak.rads$radSummary$locus.lengths, lengths.report(oak.rads, -1))