| Interface | Description |
|---|---|
| VariantContextFilter |
API for filtering VariantContexts
|
| Class | Description |
|---|---|
| CompoundFilter |
A Predicate on VariantContexts that returns true when either all its sub-predicates are true, or none are false.
|
| FilteringIterator | Deprecated |
| FilteringVariantContextIterator |
A filtering iterator for VariantContexts that takes a base iterator and a VariantContextFilter.
|
| GenotypeQualityFilter |
A Predicate on VariantContexts that returns true at sites that are either unfiltered, or passing (as variants).
|
| HeterozygosityFilter |
A Predicate on VariantContexts that either returns true at heterozygous sites (invertible to false).
|
| JavascriptVariantFilter |
javascript based variant filter The script puts the following variables in
the script context:
- 'header' a htsjdk.variant.vcf.VCFHeader
- 'variant' a htsjdk.variant.variantcontext.VariantContext
|
| PassingVariantFilter |
A Predicate on VariantContexts that returns true at sites that are either unfiltered, or passing (as variants).
|
| SnpFilter |
A Predicate on VariantContexts that returns true at sites that are SNPs
|