GENEALOGY-DNA-L Archives
Archiver > GENEALOGY-DNA > 2007-03 > 1174575081
From: Anders Pålsen <>
Subject: Re: [DNA] Using CODIS with STRUCTURE 2.1 to infer individualancestry
Date: Thu, 22 Mar 2007 15:51:21 +0100 (CET)
In-Reply-To: <f3f05ce80703220702v41f3e942o7f1bfb20bfaf0098@mail.gmail.com>
I have posted the input data to the web. Its ready for direct import to STRUCTURE.
http://www.geocities.com/tjaaehkere/TESTINPUTDATA.txt
Key information when importing:
Number of individuals = 1003
Ploidy of data = 2
Number of loci = 13
Missing data value = -9
Next
Row Markers names = x
Next
Individual ID for each individual = x
Putative population origin for each individual = x
Next
Click Proceed
The data should import and program ready for analysis.
The settings I use are mostly default. Except I am modifying the parameter set.
1. Run lenght: "Length of Burning" = 1000, "Number of MCM ..." = 1
2. Ancestry model "Use Population Information = x"
3. Allele Freq model "Allele Freq Independent = x"
The rest is default settings.
When your satisified with the setting start the job, I typically use K=4 in the jobs. After the job is finished you can view the statistics and the graphical plots.
Anders
Dienekes Pontikos <> skrev:
This is very interesting. It could be useful to post the STRUCTURE
input file(s) on the web so that others can avoid re-formatting the
data from the sources.
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| Re: [DNA] Using CODIS with STRUCTURE 2.1 to infer individualancestry by Anders Pålsen <> |