Issues surrounding GenCodev44 reference files

[Ryley Dorney]

Hello team at UCSC,

I have a very niche question,

Is there any major difference in formatting or anything with reference files from GenCodev44?

When using reference files from version 44, JAFFAL will crash and cannot identify fusions (please see this issue on GitHub https://github.com/Oshlack/JAFFA/issues/116). I tested JAFFAL with both GenCodev43 and GenCodev47 and everything runs smoothly. It is only GenCodev44 that crashes JAFFAL.

Instructions on what references files to download and how to download them are here: https://github.com/Oshlack/JAFFA/wiki/FAQandTroubleshooting#how-can-i-generate-the-reference-files-for-a-non-supported-genome

Any pointers or suggestions as to what may be the cause?

Kind regards,

Ryley Dorney 
Please read my book chapter Architects and Partners: The Dual Roles of Non-coding RNAs in Gene Fusion Events

ResearchGate Profile: https://www.researchgate.net/profile/Ryley-Dorney

Doctor of Philosophy (Medical and Molecular Sciences) Candidate 

Centre for Tropical Bioinformatics and Molecular Biology

Department of Molecular and Cell Biology 

James Cook University, Australia 

Office Hours: Monday to Friday, 9:00am - 5:00pm 

Student Email: ryley....@my.jcu.edu.au | Staff Email: ryley....@jcu.edu.au

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