| AnnotateVcfDb |
Annotate using a VCF "database"
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| AnnotateVcfDbMem |
Annotate using a VCF "database"
Note: Reads and loads the whole VCF file into memory
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| AnnotateVcfDbSorted |
Annotate using a VCF "database"
Note: Assumes that the VCF database file is sorted.
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| AnnotateVcfDbTabix |
Annotate using a tabix indexed VCF "database"
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| DbVcf |
Use a VCF file as a database for annotations
A VCF database consists of a VCF file and an index.
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| DbVcfMem |
Loads a VCF file into memory.
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| DbVcfSorted |
Use an uncompressed sorted VCF file as a database for annotations
Note: Assumes that the VCF database file is sorted and uncompressed.
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| DbVcfTabix |
Use a bgzip-compressed, tabix indexed VCF file as a database for annotations
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| MarkerFile |
Represents a marker in a file (located at 'fileIdx' bytes since the beginning of the file)
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| QueryResult |
A database query and a result.
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| VcfIndex |
An index for a VCF file
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| VcfIndexDataChromo |
Represents a set of VCF entries stored in an (uncompressed) file
All entries belong to the same chromosome
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| VcfIndexTree |
Interval tree structure for an 'VcfIndexChromo'
The whole tree is stored in a single class as a set of arrays.
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