I am a newb and I come from a background of we lab experience. Recently, we have started doing RNA-Seq. Originally, our bioinformatics core was going to handle analysis and then that person went on sabbatical. I started using Galaxy to analyze our data. My PI has set parameters (based off the literature) before proceeding with GO terms. One of the conditions is only including genes with a CV of less than or equal to 0.5. Can I do this in Galaxy? If not, could some please tell me how I could do so manually.
I went through Tophat, cufflinks, cuffcompare, cuffdiff based off a colleagues recommendation. I also have a separate workflow of htseq-count then DESeq2.
Any help will be greatly appreciated.