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Displaying alleles when using `sgkit.display_genotypes(ds)`

Open hyanwong opened this issue 1 year ago • 0 comments

When calling sgkit.display_genotypes(ds), I get a list of zeros and ones, but no clue as to what these correspond to. IMO it would be nice to have an extra column at the end of the display that gives the allele list to which the genotypes correspond?

samples    S0   S1   S2
variants                 alleles
0         0|1  1|0  1|1  A,T
1         0|0  0|1  0|1  ...
2         0|1  0|1  0|1
3         0|0  0|0  1|0
4         0|0  0|1  1|0
5         0|0  1|0  1|0
6         0|0  1|1  1|0
7         0|0  1|0  1|1
8         0|0  1|1  1|0
9         0|1  0|0  1|1

If not, some other way to show the actual alleles would be useful, e.g.

samples    S0   S1   S2
variants                
0         A|T  T|A  T|T

hyanwong avatar Jul 25 '24 20:07 hyanwong