Run different conditions and downstream analysis

[mcortes-lopez]

I tested SPLASH with a couple of samples, however I am not sure that I understand the correct way to proceed when having an specific experimental design. In my case, I have 2 types of samples, one set sharing a particular mutation, one without. I would like to check for differences between these 2 sets, but it is not clear to me how to execute SPLASH. Do I need to do individual runs for each set and then combine them (if so which step/script does the merging)? Alternatively is there a way to provide this experimental design when running all together?
Also, for the downstream analysis, having the splicing junctions that change, if my interest is to quantify these events between my conditions, what would be the way to perform this analysis?

[marekkokot]

Hi, thank you. We are currently working on improving our readme and adding some wiki pages. We will try to include an answer to your question.

[longliveJESSIE]

Hi, I think I got the same problem. Hopefully the function could be included in the next several versions!