Question: LOSITAN only recognising one loci from STACKS genepop file
gravatar for jamierobertsells
3.0 years ago by
jamierobertsells0 wrote:

Hi all,

I'm trying to analyse SNP data created within STACKS and out put from STACKS within genepop format for Lositan. When I import the data, Lositan only seems to identify 1 loci, and in fact this almost seems to be the header information in the genpop file. I created the genpop file on Linux for use on a windows machine and have tried running the file as straight output, and also a unix 2 dos conversion, but still only 1 locus of 600 is reocgnised. Any thoughts?

Many thanks


lositan stacks outlier • 765 views
ADD COMMENTlink modified 10 months ago by a.r.hoelzel0 • written 3.0 years ago by jamierobertsells0

Hi Jamie. I have the same problem here. Did you find a solution for that problem? It was already a nightmare to install this program and now this...

ADD REPLYlink written 2.3 years ago by cordeiro.emg0
gravatar for a.r.hoelzel
10 months ago by
a.r.hoelzel0 wrote:

Sorry for the late answer - only just saw this. The list of loci in your genepop input file needs to be vertical, not horizontal. You can convert this using PGDspider (just convert from genepop to genepop).

ADD COMMENTlink written 10 months ago by a.r.hoelzel0
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