Package htsjdk.samtools.util
Class FileExtensions
- java.lang.Object
-
- htsjdk.samtools.util.FileExtensions
-
public final class FileExtensions extends Object
Contains file extension constants for read, alignment, variant and annotation files
-
-
Field Summary
Fields Modifier and Type Field Description static String
BAI_INDEX
static String
BAM
static String
BCF
static String
BED
static Set<String>
BLOCK_COMPRESSED
static String
COMPRESSED_INTERVAL_LIST
static String
COMPRESSED_VCF
static String
COMPRESSED_VCF_INDEX
static String
CRAM
static String
CRAM_INDEX
static String
CSI
static String
DICT
static Set<String>
FASTA
extensions for read files and related formats.static String
FASTA_INDEX
static Set<String>
GFF3
static String
GZI
static String
INTERVAL_LIST
static String
SAM
extensions for alignment files SAM, BAM, CRAM.static String
SBI
static String
TABIX_INDEX
static String
TRIBBLE_INDEX
static String
VCF
extensions for VCF files and related formats.static String
VCF_INDEX
static List<String>
VCF_LIST
-
Constructor Summary
Constructors Constructor Description FileExtensions()
-
-
-
Field Detail
-
FASTA_INDEX
public static final String FASTA_INDEX
- See Also:
- Constant Field Values
-
SAM
public static final String SAM
extensions for alignment files SAM, BAM, CRAM.- See Also:
- Constant Field Values
-
BAM
public static final String BAM
- See Also:
- Constant Field Values
-
BAI_INDEX
public static final String BAI_INDEX
- See Also:
- Constant Field Values
-
CRAM
public static final String CRAM
- See Also:
- Constant Field Values
-
CRAM_INDEX
public static final String CRAM_INDEX
- See Also:
- Constant Field Values
-
BED
public static final String BED
- See Also:
- Constant Field Values
-
TABIX_INDEX
public static final String TABIX_INDEX
- See Also:
- Constant Field Values
-
TRIBBLE_INDEX
public static final String TRIBBLE_INDEX
- See Also:
- Constant Field Values
-
VCF
public static final String VCF
extensions for VCF files and related formats.- See Also:
- Constant Field Values
-
VCF_INDEX
public static final String VCF_INDEX
- See Also:
- Constant Field Values
-
BCF
public static final String BCF
- See Also:
- Constant Field Values
-
COMPRESSED_VCF
public static final String COMPRESSED_VCF
- See Also:
- Constant Field Values
-
COMPRESSED_VCF_INDEX
public static final String COMPRESSED_VCF_INDEX
- See Also:
- Constant Field Values
-
INTERVAL_LIST
public static final String INTERVAL_LIST
- See Also:
- Constant Field Values
-
COMPRESSED_INTERVAL_LIST
public static final String COMPRESSED_INTERVAL_LIST
- See Also:
- Constant Field Values
-
DICT
public static final String DICT
- See Also:
- Constant Field Values
-
GZI
public static final String GZI
- See Also:
- Constant Field Values
-
SBI
public static final String SBI
- See Also:
- Constant Field Values
-
CSI
public static final String CSI
- See Also:
- Constant Field Values
-
-