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esrud / GONE

GONE: Scripts, programs and an example data set
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Too few bins? #50

Open kwantn opened 2 weeks ago

kwantn commented 2 weeks ago

Hi Armando and all,

The provided example.ped and .map worked beautifully. However with my own data set, I am constantly facing the error 'Too few bins' despite altering to even NGEN=200, NBIN=200. I am working with DArTseq reduced representation SNPs, and upon filtering I have 16,194 SNPs (i.e. 8097 loci). This is the number of loci on the 20 chromosome.

image

I attached my .bed and .map here. I hope this is not due to insufficient SNPs for the recombination bins.

Cheers kwan

armando-caballero commented 2 weeks ago

Yes, I think there are too few loci within each chromosome to make an enough number of bins. Try other combinations of NGEN and NBIN. Best wishes, Armando