SNP input data for Arlequin
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3.1 years ago
mahnazkiani ▴ 50

I got the population.haps.vcf file from Stacks and converted to .arp file using PGDSpider, but still is not working in Arlequin. I appreciate your help for preparing Arlequin input file. I have 48 samples from 8 populations. Do I need to edit the file?

Thanks!``

ddRAD • 2.1k views
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What is your issue? I have ran across the issue of Arlequin not showing any progress during an analysis, and just had the analysis done in DnaSP instead.

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I tried to use DnaSP as well but when I convert my data to .NEXUS by PGDSpider it is not readable in DnaSp

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Hi:

Have you solved your problem? I have also been using Arlequin recently and have encountered the same problem, but I don't know how to deal with it, do you want to talk about it? (The VCF file is obtained by stacks v2.55)

Thanks

Ling

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