difference between rr ff and rf reads

[angerusso]

Hi:

I am wondering which fusion should I prioritize from a couple of candidates.

As you know tophat fusion generates a list with the direction of fusion mentioned as well. I am not a biologist and am wondering should I use directionality to prioritize one vs another to investigate further. E.g. are "rf" or "fr" be higher priority compared to "rr" or "ff".

Any suggestions, reference and biological insights will be greatly useful.

Thanks a ton!

[lindenb]

cross posted on biostars: http://www.biostars.org/p/86183/

[dpryan]

Answered over on biostars.