Looking For Tools To Find Non-Coding Rnas In Bacterial Rna-Seq Data

Question

[biotech]

Hi,

I'm looking for tools to semi-automate finding non-coding RNAs in bacterial RNA-seq data. I've been able to find these or these tools, but I'm still quite lost. I've also seen this Biostar post.

The few papers I could find don't follow a common method.

Can anyone recommend me the best approach?

Thanks, Bernardo

Answer 1

[gufernandez10]

Hi a nice software to do it is Rockhopper , allow work with different experimental condition http://cs.wellesley.edu/~btjaden/Rockhopper/ maybe you should complement with homology studied as RNA structure conservation and sequence homology.