search

drobledoruiz / conservation_genomics

8 stars 0 forks source link

COLONY error: offspring ID not found in offspring pool #19

Open kwantn opened 1 month ago

kwantn commented 1 month ago

Hi there,

Neat function to convert gl2colony - thanks! I managed to produce .dat file and get COLONY to run analysis. However, it immediately flagged 'Offspring ID, 4670, not found in the offspring pool! I went through the .dat file and none of offspring has such ID (or anything near such format/convention). I am dealing with dartseq SNP. I suspect some of the ind/loc metadata got mis-read during the transformation?

My test data is dartseq SNP (5k loci) and 40 individuals. Example of locus name '94046556-5-T/C', individual name 'ABC-123'.

Any possible ideas of what went wrong? during the data transformation?

Cheers Kwan

drobledoruiz commented 1 month ago

Hi Kwan,

Thanks for writing! Could you please send me your genlight object as an R object so I can troubleshoot this?

You can do: save(my_genlight, file = "my_genlight.r")

If you prefer, you can send it to my institutional email (listed in the Contact section of the README).

Best, Diana

kwantn commented 1 week ago

Sorry Diana for the late response. I got it working - no problem!