Format matrix#
Format |
Modality |
Encoding |
Multiple resolutions |
Compression support[1] |
Index support |
Authority |
|---|---|---|---|---|---|---|
FASTQ |
Sequence |
Text |
No |
BGZF |
||
FASTA |
Sequence |
Text |
No |
BGZF |
FAI, FAI + GZI[2] |
|
SAM |
Alignment |
Text |
No |
BGZF |
TBI, CSI |
[3] |
BAM |
Alignment |
Binary |
No |
BGZF |
BAI, CSI |
[3] |
VCF |
Variant call |
Text |
No |
BGZF |
TBI, CSI |
[3] |
BCF |
Variant call |
Binary |
No |
BGZF |
CSI |
[3] |
GTF |
Feature |
Text |
No |
BGZF |
TBI, CSI |
|
GFF3 |
Feature |
Text |
No |
BGZF |
TBI, CSI |
[5] |
BED |
Feature |
Text |
No |
BGZF |
TBI, CSI |
[3], [4] |
BigBed |
Feature |
Binary |
Yes |
deflate |
Internal index |
[4] |
BigWig |
Feature |
Binary |
Yes |
deflate |
Internal index |
[4] |