STRUCTURE software format
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4 months ago

Hello,

I am using STRUCTURE 2.3.4 software for population genetic analysis. But something goes wrong.

First, I converted VCF files into STRUCTURE file format with PGDspider ver 2.1.1.5.

Then, I tried importing the file into a new project(File -> New Project). In setting step, I specified Number of loci as "1377" because STRUCTURE says my data has "294 Lines with 1377 Columns/1 Line with 1375 Columns" ,clicking "Show data file format". For your infomation, number of my sample is 147.

When I finish setting and want to proceed, error "Bad Format in Data Source: Expect 1379 data entries at line 1" occurs, and clicking "OK", a window says "The data file is expected to have following format: 1 row with 1377 entries(marker name)/294 rows with 1379 entries(data)".

Though I turned back to the setting and modified Number of loci several times, almost the same error occurs, "294 rows with ** entries" increasing by 2 from 1377.

So could somebody tell me how to solve this problem?

Thank you all.

SNP software error STRUCTURE populationgenetics • 463 views
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As described on their website, please post this on their Google group. I think this post may be closed as there is an explicitly different support forum for this software.

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4 months ago

Thank you _r_am.

A postdoc in my lab solved this problem.

He said that my STRUCTURE file is consisted of 1 line with * columns( = number of loci ), and * line ( =number of sample x 2)with columns( *=+2, because 2 columns that contain sample ID and sample population are on the left side).

So, I specified Number of loci as "1375" and everything worked!

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