Reference Genomes

What genomes does SEQuoia Express Toolkit support?

Currently SEQuoia Express toolkit supports the following model organisms:

• hg38 - Human genome
• mm10 - Mouse genome
• rnor6 - Rat genome
• tair10 - Arabidopsis genome
• sacCer3 - Yeast genome
• dm6 - Fly genome
• danRer11 - Zebrafish genome
• ce11 - Worm genome

How To:

Download prebuilt genomes

Bio-Rad has prepared and validated reference genomes for the model organisms listed above. To download these genomes, please follow the steps below

1. Navigate to our Dropbox.
2. Select the .tar.gz file for the reference genome you would like to download. When hovering over the file name, a box that says "Copy link" will appear in the row.
3. Click that button to get the link (it will get copied to your clipboard).
4. Create a folder / directory for the genomes and enter it mkdir genomes && cd genomes
5. Follow the README instructions: wget -O my_genome.tar.gz dropbox/link/here/my_genome.tar.gzdl=0 to download the compressed genome files to the current directory.
6. Uncompress using tar xvzf my_genome.tar.gz. This will create the directory structure the SEQuoia Express Toolkit is expecting to be able to use for your samples.

FAQ / Issues

• Do not name the genomes folder after the genome you want to use. For example, do not create a genome directory like ~/mm10/mm10. Naming conventions like these will break the report generation step.