Hello Biostars, I am currently working on WGCNA analysis for RNA-Seq data, the input gene count matrix files contain Ensemble gene ids and MSTRG ids. Now I want to create the annotation files. I have stringTie merged files, can I use it as annotation file?
If possible means that file contains many repetitions gene symbols and Ensembl ids. My query is, How to extract ensemble gene ids and corresponding gene names from the StringTie file into separate CSV files.
annotation file format
S.No Ensembl id Gene name