From: Identifying and mitigating batch effects in whole genome sequencing data
Variable Mean (SD) | Group 1 | Group 2 | p-valuea |
---|---|---|---|
N | 918 | 313 | Â |
GATK Genotype Quality | 91.47 (2.72) | 90.77 (3.57) | NS |
Median Read Depth | 33.65 (4.69) | 35.39 (6.81) | NS |
Ti/Tv in Non Coding Regions | 2.01 (0.012) | 1.95 (0.019) | < 0.0001 |
Ti/Tv in Coding Regions | 2.99 (0.053) | 2.90 (0.032) | < 0.0001 |
% Confirmed in 1000 Genomes | 81 (0.87) | 77 (0.76) | < 0.0001 |
Percent Heterozygote | 7.5 (0.48) | 8.2 (0.45) | < 0.0001 |