Table A1.
Operators allowed in SnpSift filter.
| Operand | Description | Data type | Example |
|---|---|---|---|
| = | Equality test | FLOAT, INT or STRING | (REF = ‘A’) |
| > | Greater than | FLOAT or INT | (DP > 20) |
| ≥ | Greater or equal than | FLOAT or INT | (DP ≥ 20) |
| < | Less than | FLOAT or INT | (DP < 20) |
| ≤ | Less or equal than | FLOAT or INT | (DP ≤ 20) |
| =~ | Match regular expression | STRING | (REL =~ ‘AC’) |
| !~ | Does not match regular expression | STRING | (REL!~ ‘AC’) |
| & | AND operator | Boolean | (DP > 20) & (REF = ‘A’) |
| | | OR operator | Boolean | (DP > 20) | (REF = ‘A’) |
| ! | NOT operator | Boolean | ! (DP > 20) |
| exists | The variable exists (not missing) | Any | (exists INDEL) |