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DReichLab / AdmixTools

Tools test whether admixture occurred and more
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How to performe D-stats without chromosome information? #36

Open asassone opened 7 years ago

asassone commented 7 years ago

I have a "de novo" assembly, and when trying to use qpDstats the columns of chromosome information in the snp file is necesary to run the program. I tried to complete the columned with NA and it is not possible. How can I solve this? If completing the chromosome number randomly the results can chage. I am not sure how to proceed.

Thanks

Agostina

bumblenick commented 7 years ago

If you have just a few contigs you can just map them to C1-23 more or less at random. If you have hundreds of contigs and no info about LD then I don't know how to get Z-scores.

Nick

On Fri, Nov 24, 2017 at 9:23 AM, asassone notifications@github.com wrote:

I have a "de novo" assembly, and when trying to use qpDstats the columns of chromosome information in the snp file is necesary to run the program. I tried to complete the columned with NA and it is not possible. How can I solve this? If completing the chromosome number randomly the results can chage. I am not sure how to proceed.

Thanks

Agostina

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asassone commented 7 years ago

Thank you very much.