| Interface | Description |
|---|---|
| VariantContextWriter |
this class writes VCF files
|
| Class | Description |
|---|---|
| AsyncVariantContextWriter |
AsyncVariantContextWriter that can be wrapped around an underlying AsyncVariantContextWriter to provide asynchronous output.
|
| BCF2Encoder |
See #BCFWriter for documentation on this classes role in encoding BCF2 files
|
| BCF2FieldEncoder |
See #BCFWriter for documentation on this classes role in encoding BCF2 files
|
| BCF2FieldEncoder.AtomicInt |
Specialized int encoder for atomic (non-list) integers
|
| BCF2FieldEncoder.Flag | |
| BCF2FieldEncoder.Float | |
| BCF2FieldEncoder.GenericInts | |
| BCF2FieldEncoder.IntArray | |
| BCF2FieldEncoder.StringOrCharacter | |
| BCF2FieldWriter |
See #BCFWriter for documentation on this classes role in encoding BCF2 files
|
| BCF2FieldWriter.FTGenotypesWriter | |
| BCF2FieldWriter.GenericSiteWriter | |
| BCF2FieldWriter.GenotypesWriter | |
| BCF2FieldWriter.GTWriter | |
| BCF2FieldWriter.IGFGenotypesWriter | |
| BCF2FieldWriter.IntegerTypeGenotypesWriter | |
| BCF2FieldWriter.SiteWriter | |
| BCF2FieldWriter.StaticallyTypeGenotypesWriter | |
| BCF2FieldWriterManager |
See #BCFWriter for documentation on this classes role in encoding BCF2 files
|
| IntGenotypeFieldAccessors |
A convenient way to provide a single view on the many int and int[] field values we work with,
for writing out the values.
|
| IntGenotypeFieldAccessors.Accessor | |
| IntGenotypeFieldAccessors.ADAccessor | |
| IntGenotypeFieldAccessors.DPAccessor | |
| IntGenotypeFieldAccessors.GQAccessor | |
| IntGenotypeFieldAccessors.PLAccessor | |
| SortingVariantContextWriter | Deprecated
9/2017, this class is completely untested and unsupported, there is no replacement at this time
if you use this class please file an issue on github or it will be removed at some point in the future
|
| VariantContextWriterBuilder |
| Enum | Description |
|---|---|
| Options |
Available writer options for VariantContextWriters
|
| VariantContextWriterBuilder.OutputType |