[adegenet-forum] different number of individuals in fastas

[Katharine Coykendall]

Hello,
 I've been following the instructions found at
http://popgen.nescent.org/PopDiffSequenceData.html to do a hierarchical F
analysis on my data.  I have two fasta files with the same 117 individuals
in each file.  The files are different genes.  When I put them together
using the read.multiFASTA command, it tells me that there are 120
sequences.  When I turn it into a genid object it says there are 120
individuals and 19 alleles.  I checked both files to make sure that the
sample names are the same between them and they are. I was wondering if it
had to do with add.gaps=TRUE so I tried to set it to false, but I get an
error
Error in file(con, "rb") : cannot open the connection
In addition: Warning message:
In file(con, "rb") : cannot open file 'FALSE': No such file or directory

Is there an easy way to look at the multiFASTA or genid file to see where
the extra three individuals are coming from?

Thanks,
Katharine
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