Hello I am doing RNA-seq analysis using local server galaxy. I'm following the new Tuxedo protocol HISAT>Stringtie>Ballgown. I have a question regarding Ballgown input. Apart from the 5 stringtie output files ballgown requires another phenotype data file for input. Is there any reference phenotype data file? or Do I have to write the file myself using text editor?
I have two experiment groups of Tumor and Normal with 30 matching samples in each group. Can anyone kindly give me an idea about how to arrange the phenotype data file?