Plant sRNA seq analysis pipelines

Question

[weixuchu63]

Hello fellows,

I have some citrus plant sRNA seq data for analysis. This is my first time working with sRNA. I have learned a lot here by the previous posts. I learned there are several package you can use, such as, bbMap, SPAR, Shortstack, UEA sRNA workbench... I also learned if you know programming, you can try with different software for different purpose. However, I just don't know which pipeline is standard or more wide used in sRNA seq analysis. If any of you experts could give me some suggestion, that will be really appreciated.

Thanks,
Xu