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<div style="direction: ltr;font-family: Tahoma;color: #000000;font-size: 10pt;"><font size="2">Hi there,
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for 1) please check the manpage - "pop" is there to specify populations!<br>
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As for 2), it is hard to find out without knowing how </font>NJ155_gen has been created. This should be a genind object, with something in @pop as you leave pop=NULL. A minimal reproducible example would be useful.<br>
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Cheers<br>
Thibaut<br>
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<div style="direction: ltr;" id="divRpF54389"><font size="2" color="#000000" face="Tahoma"><b>From:</b> adegenet-forum-bounces@lists.r-forge.r-project.org [adegenet-forum-bounces@lists.r-forge.r-project.org] on behalf of Tara Baris [tzbaris@icloud.com]<br>
<b>Sent:</b> 20 November 2014 17:13<br>
<b>To:</b> adegenet-forum@lists.r-forge.r-project.org<br>
<b>Subject:</b> [adegenet-forum] Fst values<br>
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<div>Hi,
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<div>I’m trying to calculate Fst values for about 10,000 loci in two different populations using the following line of code:</div>
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<div style="margin:0px; font-size:10px"> pairwise.fst(x, pop=NULL, res.type=c("dist","matrix"), truenames=TRUE)</div>
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<div style="margin:0px; font-size:10px"><span style="font-size:12px">I have two questions:</span></div>
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<div style="margin:0px"><span style="font-size:12px">1) How would I specify the populations in this line? If I included a population </span>definition file when converting to a genetix file, is that sufficient, and would the it still be pop=NULL?</div>
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<div style="margin:0px">2) When I try to run this in R, I get the following error message. Am I missing something?</div>
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<div style="margin:0px">> pairwise.fst(NJ155_gen, pop=NULL, res.type=c("dist","matrix"), truenames=TRUE)</div>
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<div style="margin:0px"><font color="#e32400">Error in sub(paste("^.{", ncode/ploidy, "}", sep = ""), "", X) : </font></div>
<div style="margin:0px"><font color="#e32400"> invalid regular expression '^.{543}', reason 'Invalid contents of {}’</font></div>
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<div style="margin:0px">Thank you, </div>
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<div style="margin:0px">Tara</div>
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