[adegenet-forum] find.clusters() freezes on DAPC

[Alan Garcia-Elfring]

Hi everyone,


I'm wondering if anyone has gotten stuck on the find.clusters function?


I did a DAPC on this exact dataset in some months back and now I want that I redo it to check a different K value and change the colours, but it keeps getting stuck on find.clusters.


Any idea what may be causing this? If I remember correctly, this step doesn't take long, definitely not more than a day.


I've tried on a new mac and also on a PC using the parallel = FALSE argument.

Any help is appreciated.

>pldata = read.PLINK("batch_1_recode.raw")

>grp = find.clusters(pldata, max.n.clust = 15)         ##GETS  STUCK ON THIS



/// GENLIGHT OBJECT /////////

 // 229 genotypes,  62,236 binary SNPs, size: 15.3 Mb

 // Basic content
   @gen: list of 229 SNPbin
   @ploidy: ploidy of each individual  (range: 2-2)

 // Optional content
   @ind.names:  229 individual labels
   @loc.names:  62236 locus labels
   @pop: population of each individual (group size range: 8-20)
   @other: a list containing: sex  phenotype  pat  mat


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