Table 1 Obtained and validated SNPs per parameter set. Of the six tested parameter combinations, the lowest false positive rate was retrieved with the default values: 15 Minimum coverage and 70 Minimum average quality
Parameters used (Min. Average Quality) | ||||||
|---|---|---|---|---|---|---|
10|60 | 10|70 | 15|60 | 15|70 (Default) | 10|75 | 20|70 | |
Total SNPs retrieved | 234 | 169 | 155 | 114 | 107 | 89 |
Confirmed SNPs | 97 | 86 | 88 | 82 | 69 | 57 |
False Positive rate (%) | 58.55 | 49.11 | 43.23 | 28.07 | 35.51 | 35.96 |