In the ima2 formatted output files, the listed length of each haplotype sequence is generally 30 bp longer than they actually are. However, a very small number of these values are correct.
I figured this out because in writing a script to convert the ima2 out file to arlequin, I used the haplotype length values to determine how many? To insert or the missing haplotypes by locus. This resulted in a file that arlequin couldn't digest.
Once I identified the issue, I used the actual lengths of the haps in each locus to determine the number of? And I now have a working arlequin file.
In the ima2 formatted output files, the listed length of each haplotype sequence is generally 30 bp longer than they actually are. However, a very small number of these values are correct.
I figured this out because in writing a script to convert the ima2 out file to arlequin, I used the haplotype length values to determine how many? To insert or the missing haplotypes by locus. This resulted in a file that arlequin couldn't digest.
Once I identified the issue, I used the actual lengths of the haps in each locus to determine the number of? And I now have a working arlequin file.