Skip to content

Precomputed Index Files

Index files for

  • BWA version 0.7.12 and 0.7.15,
  • bowtie2 version 2.2.5 and
  • STAR version 2.4.1d

have been precomputed. The index corresponding to each genome is stored in the following directory structure with the above mentioned reference genomes as subfolders (listed here only for Bowtie/1.1.2, same subfolders for the remaining programs):

static_data/precomputed
├── Bowtie
│   └── 1.1.2
│       ├── danRer10
│       ├── dm6
│       ├── ecoli
│       ├── GRCh37
│       ├── GRCh38
│       ├── GRCm38
│       ├── hg18
│       ├── hg19
│       ├── hg38
│       ├── mm10
│       ├── mm9
│       ├── NCBIM37
│       ├── phix
│       ├── sacCer3
│       ├── UniVec
│       └── UniVec_Core
├── Bowtie2
│   └── 2.2.5
│       └── [see Bowtie/1.1.2]
├── BWA
│   ├── 0.7.12
│   │   └── [see Bowtie/1.1.2]
│   └── 0.7.15
│       └── [see Bowtie/1.1.2]
└── STAR
    └── 2.4.1d
        └── default
            └── [see Bowtie/1.1.2]

Last update: September 19, 2022