small RNAseq analysis of non human samples

Question

[luffy]

Hello all,

Please share a workflow/pipeline for RNA-seq analysis focused on small RNA of insects such as roaches. Since annotation is available for protein coding only, in this scenario how do I deal with question of regulation of small RNA

Any help would be much appreciated

Thank you

[ATpoint]

When I read this sort of broad questions one wonders what the project is. First of all, what sort of data do you have? smallRNA-seq indeed or normal RNA-seq and now yopu try to find smallRNAs in there? Is this a project that has started already or is your lab diving into this? Does your lab have any prior experience in this? Please describe goals, data and aims. Otherwise it is hard to recommend something.