[Charitra]

Hi Zaki
Sorry for late reply, I was stuck up with some of my problem too.

For your problem, I think you need to give a break for a day or two to refresh your mind.
Second, give me you id so that we can do voice chat co I think you can not write everything here to solve problem.
Lets make some time to have voice chat then we can figure it out your problem..
my id is charitrakumarmishra(at)gmail(dot)com

[aditisk]

I do not remember it. My suggestion is that you first set up the PATH correctly and then run the pipeline from the very beginning. If the problem occurs again, it might be wrong with something else. Another case is that in your samples, there are no fusion events at all--it is not necessary that we could observe fusions in each sample.

Good luck!

@mrfox, I am able to get Tophat-Fusion working on 1/4 samples from a group. So I guess I have set everything up correctly. But for the other 3 samples I get zero gene fusions. Is it likely that those samples have no gene fusions at all ? This is my first time working with gene fusions so I am not sure of how common it is to have a sample with no gene fusions at all.

Looking forward to hearing back from you or someone else on this issue.

Thanks.