Hi,
I've run an RNAseq experiment to look for differentially expressed genes using CuffDiff. I've been using the Tuxedo protocol thus far and wanted to continue by using CummeRbund to visualize my results and create graphics for publication, but I noticed that CummeRbund is not included in Galaxy. Some other protocols also use tools such as edgeR and DESeq, which they cite as being found under "NGS: RNA analysis" in Galaxy, but I don't have seem to have this set of tools in Galaxy.
Are there other similar tools I can use to explore and visualize differential gene expression, novel splicing events, etc in Galaxy? Is there a way to add tools such as CummeRbund that I'm unaware of? I can always use the desktop version of CummeRbund with RStudio, but I'd rather avoid this option if possible as I do not have any coding experience. An online interface would be preferable.
Thanks.
