These are chat archives for dereneaton/ipyrad

Jan 2017
Jan 25 2017 13:15 UTC
Hi @dereneaton and @isaacovercast , is it possible to run ipyrad with the two-enzyme GBS method (single-end reads) according to Poland et al.?
Deren Eaton
Jan 25 2017 15:31 UTC
@BeVlm Yes, ipyrad should have no problem with it. I think the appropriate settings in ipyrad for this would be:
datatype = ddrad
restriction_overhang = TGCAG,CCGG
@StuntsPT I haven't been able to replicate this problem. The sample is properly removed when I try. Can you provide any more information? Perhaps if you email me your JSON file I can find the problem.
Francisco Pina-Martins
Jan 25 2017 15:33 UTC
@dereneaton thanks for looking into it. I have worked around the problem by removing the sample from the barcodes file, but I'll find that run and email that json
Jan 25 2017 15:38 UTC
@dereneaton thank you, I will try that