1. Bowtie2 index files
We first download the Reference genome sequences for Human, Mouse, and Drosophila from UCSC. We then build the bowtie2 index files for human + Drosophila and mouse + Drosophila composite genomes (listed in the table below).
2. Index files for Human + Drosophila
Composite genome |
Download link |
Size |
md5sum |
Human (GRCh37/hg19) + Drosophila (dm6) |
4.9 GB |
962d0356703462f610cde06e46bde9e4 |
|
Human (GRCh38/hg38) + Drosophila (dm6) |
5.1 GB |
efb62dac65aafae0ca8d300525cae7c6 |
3. Index files for Mouse + Drosophila
Composite genome |
Download link |
Size |
md5sum |
Mouse (NCBI37/mm9) + Drosophila (dm6) |
4.3 GB |
885d11585ed5d407f9f37eafd8fff106 |
|
Mouse (GRCm38/mm10) + Drosophila (dm6) |
4.5 GB |
751753ff50bb2c228e213a8873e92943 |
|
Mouse (GRCm39/mm39) + Drosophila (dm6) |
4.5 GB |
e1cafa46619ad1a1bfd98e00a635e853 |
After download, use md5sum *.tar.gz
(Linux) or md5 *.tar.gz
(Mac OS X) to verify the file integrity and then use tar -zxvf *.tar.gz
to uncompress.
Note
Because the Drosophila genome also has the “chrX”, “chrY” and, “chrM”. In the composite genome, the chromosome IDs of Drosophila were modified by adding the prefix “dm6_”.