Databases

The file formats in the static_data/db folder are mostly .vcf or .bed files. We provide the following databases:

Database	Version	Reference genome
COSMIC	v72	GRCh37
dbNSFP	2.9	GRCh37/hg19
dbSNP	b128	mm9
dbSNP	b128	NCBIM37
dbSNP	b142	GRCh37
dbSNP	b144	GRCh38
dbSNP	b147	GRCh37
dbSNP	b147	GRCh38
dbSNP	b150	GRCh37
dbSNP	b150	GRCh38
DGV	2015-07-23	GRCh37
ExAC	release0.3	GRCh37/hg19
ExAC	release0.3.1	GRCh37/hg19
giab	NA12878_HG001/NISTv2.19	GRCh37
goldenpath	variable	GRCh37
goldenpath	variable	hg19
goldenpath	variable	mm9
goldenpath	variable	NCBIM37
SangerMousegenomesProject	REL-1211-SNPs_Indels	mm9
SangerMousegenomesProject	REL-1211-SNPs_Indels	NCBIM37
UK10K cohort	REL-2012-06-02	GRCh37

The directory structure is as follows:

static_data/db
├── COSMIC
│   └── v72
│       └── GRCh37
├── dbNSFP
│   └── 2.9
├── dbSNP
│   ├── b128
│   │   ├── mm9
│   │   └── NCBIM37
│   ├── b142
│   │   └── GRCh37
│   ├── b144
│   │   └── GRCh38
│   └── b147
│       ├── GRCh37
│       └── GRCh38
├── DGV
│   └── 2015-07-23
│       └── GRCh37
├── ExAC
│   ├── release0.3
│   └── release0.3.1
├── giab
│   └── NA12878_HG001
│       └── NISTv2.19
├── goldenpath
│   └── variable
│       ├── GRCh37
│       ├── hg19
│       ├── mm9
│       └── NCBIM37
├── SangerMouseGenomesProject
│   └── REL-1211-SNPs_Indels
│       ├── mm9
│       └── NCBIM37
└── UK10K_cohort
    └── REL-2012-06-02