What are the suitable packages for GO and GSEA to put inside of pipeline ?

Question

[jack]

Hi all,

I'm developing pipeline. in one part of my pipeline, I want to do GO and GSEA for the DE genes.

Could you please give me the name of some good GO and GSEA analysis package which I can use them easily inside of my pipeline?

Answer 1

[EagleEye]

Check this out. you can integrate this in any pipeline.

Gene Set Clustering based on Functional annotation (GeneSCF)