sRNA seq analysis after trimming adapter

Question

[Ramon]

Hi, I'd like to ask about small RNA seq analysis.

Now, I am using sRNApipe which are possible at galaxy. and I have raw data with adpater.

First, I used trimmomatic for trimming. after that, sequence range are changed. (From 51bp to 18-51bp)

Is it normal situation?

and then what should i do for right next with in galaxy??

Do i just put the FASTA into the sRNApipe?

[swbarnes2]

What do think trimming should do if not make the read lengths shorter?

[Ramon]

I mean not the shorter one!

Do i need to do something with 51bp things?

[GenoMax]

If the reads do not contain the specified sRNA kit adapter then they are likely not smallRNA. So you probably want to focus on the reads that actually became the right size after trimming. You can filter your file to remove reads that are not the right size.

[Ramon]

Oh, that means i have to re-gather the right size(this case 18-35bp) for the farther step!

I thought they are also smallRNA so i should do something else for them.

I really thank you for your help!!