Reference Genomes

What genomes does SEQuoia Express Toolkit support?

Currently SEQuoia Express toolkit supports the following model organisms:

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

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 the full list of files for local download can be found in our Dropbox.

1. Select the link from the list above and choose copy link address.
2. Create a folder / directory for the genomes and enter it mkdir genomes && cd genomes
3. 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.
4. 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.
• If you are using curl or forget to put in the -O option for wget you can also just remove the "?dl=0" from the end of the link to get the file as well (the -O option is recommended).