Package htsjdk.samtools.util
Class FileExtensions
- java.lang.Object
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- htsjdk.samtools.util.FileExtensions
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public final class FileExtensions extends Object
Contains file extension constants for read, alignment, variant and annotation files
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Field Summary
Fields Modifier and Type Field Description static StringBAI_INDEXstatic StringBAMstatic StringBCFstatic StringBEDstatic Set<String>BLOCK_COMPRESSEDstatic StringCOMPRESSED_INTERVAL_LISTstatic StringCOMPRESSED_VCFstatic StringCOMPRESSED_VCF_INDEXstatic StringCRAMstatic StringCRAM_INDEXstatic StringCSIstatic StringDICTstatic Set<String>FASTAextensions for read files and related formats.static StringFASTA_INDEXstatic Set<String>GFF3static StringGZIstatic StringINTERVAL_LISTstatic StringSAMextensions for alignment files SAM, BAM, CRAM.static StringSBIstatic StringTABIX_INDEXstatic StringTRIBBLE_INDEXstatic StringVCFextensions for VCF files and related formats.static StringVCF_INDEXstatic List<String>VCF_LIST
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Constructor Summary
Constructors Constructor Description FileExtensions()
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Field Detail
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FASTA_INDEX
public static final String FASTA_INDEX
- See Also:
- Constant Field Values
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SAM
public static final String SAM
extensions for alignment files SAM, BAM, CRAM.- See Also:
- Constant Field Values
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BAM
public static final String BAM
- See Also:
- Constant Field Values
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BAI_INDEX
public static final String BAI_INDEX
- See Also:
- Constant Field Values
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CRAM
public static final String CRAM
- See Also:
- Constant Field Values
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CRAM_INDEX
public static final String CRAM_INDEX
- See Also:
- Constant Field Values
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BED
public static final String BED
- See Also:
- Constant Field Values
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TABIX_INDEX
public static final String TABIX_INDEX
- See Also:
- Constant Field Values
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TRIBBLE_INDEX
public static final String TRIBBLE_INDEX
- See Also:
- Constant Field Values
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VCF
public static final String VCF
extensions for VCF files and related formats.- See Also:
- Constant Field Values
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VCF_INDEX
public static final String VCF_INDEX
- See Also:
- Constant Field Values
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BCF
public static final String BCF
- See Also:
- Constant Field Values
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COMPRESSED_VCF
public static final String COMPRESSED_VCF
- See Also:
- Constant Field Values
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COMPRESSED_VCF_INDEX
public static final String COMPRESSED_VCF_INDEX
- See Also:
- Constant Field Values
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INTERVAL_LIST
public static final String INTERVAL_LIST
- See Also:
- Constant Field Values
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COMPRESSED_INTERVAL_LIST
public static final String COMPRESSED_INTERVAL_LIST
- See Also:
- Constant Field Values
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DICT
public static final String DICT
- See Also:
- Constant Field Values
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GZI
public static final String GZI
- See Also:
- Constant Field Values
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SBI
public static final String SBI
- See Also:
- Constant Field Values
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CSI
public static final String CSI
- See Also:
- Constant Field Values
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