Rna-Seq pipeline in R

Question

[ta_awwad]

Hello everybody, I am glad to be a member of this great blog.I am analyzing RNA-Seq data right now. I did the analysis with CummRbund however, the reviewers asked to re-run the analysis with read count. my question: Does anyone have detailed easy RNA-Seq workflow in R (from reads to DE genes)?

I appreciate your help

Answer 1

[zwdzwd]

This great tutorial on from bioconductor is probably what you need. The tutorial uses DESeq2, but you can have it adapted to other tools as well. http://www.bioconductor.org/help/workflows/rnaseqGene/

Answer 2

[ta_awwad]

Thanks Zwdzwd for your answer. It was very helpful