How to calculate effect size between two samples for a gene set in case if I have effect size of the two samples?
 

for example 
   

       s.dist        sample1         sample 2
    
    0.4730	  -0.05460         -0.47000	

How s,dist has been calculated?
Thanks

> How s,dist has been calculated?

Since you have *euclidean* among your keywords, I suspect the answer is the euclidean distance between the two samples: 

```
sqrt((-0.05460)^2 + (-0.47000)^2) 
0.4731608
```

perhaps the discrepancy with your 0.4730 is due to some rounding error in reporting. 