
For instructions to install and run under linux x86_64 (other systems not supported), please see https://github.com/Oshlack/JAFFA/wiki

Questions and bug reports should be directed to the google group linked to on that page.

If you use JAFFA to analyse your data, please cite our papers:

"Nadia M Davidson, Ian J Majewski and Alicia Oshlack, JAFFA: High sensitivity transcriptome-focused fusion gene detection, Genome Medicine 2015, 7:43", http://www.genomemedicine.com/content/7/1/43

"Nadia M Davidson, Ying Chen, Teresa Sadras, Georgina L Ryland, Piers Blombery, Paul G Ekert, Jonathan Göke, Alicia Oshlack, JAFFAL: detecting fusion genes with long-read transcriptome sequencing, Genome biology 2022, Volume 23, article number 10, https://link.springer.com/article/10.1186/s13059-021-02588-5"

Written and maintained by Nadia Davidson, Walter and Eliza Hall Institute
Last Updated 18 Feb 2026
