Hi all, i have a set of SNP data for some samples (diploid species), and I want to calculate the kinship using SPAGeD software.So i how do i set the SNP data form to calculate kinship? And the following data is a example data. So the first line includes(# number of individuals; #number of categories; #number of spatial coordinates; #number of SNP; # number of digit; #ploidy);
And the second line : # distance intervals.So,
Question1: i am sure that number of individuals=9,number of categories=0,number of SNP=9,ploidy=2, but what's the meaning of ("#number of spatial coordinates","# number of digit","# distance intervals")?
Question 2 How to input SNP data? which one should i choose, TT/TT,TT,or 11/11...?
Thanks in advance.
Marker1 Marker2 Marker3 Marker4 Marker5 Marker6 Marker7 Marker8 Marker9 individual1 CC TT GG TT GG AA AA CC CC individual2 AA TT GG TT GG GG AA GG CC individual3 CC TT GG CC GG AA CC CC CC individual4 AA TT GG TT GG GG CC CC TT individual5 CC TT GG TT AA GG AA CC TT individual6 CC TT GG TT AA GG AA CC CC individual7 CC TT GG TT AA GG AA CC CC individual8 AA TT AA TT GG GG CC CC CC individual9 CC TT GG TT GG GG CC GG CC`