Hello I was advised to do a QTL analysis of our RNAseq data using WASP. I'm been reading about this tool and wondering:
- Would it be possible to do this type of analysis if my RNAseq are all from tumor samples (papilloma and carcinoma of the same tissue) and there's no control RNA? I think it won't be possible to do a Combined Haplotype test if we just have 1 type of haplotype (tumor).
- I have 4 carcinoma and 17 papilloma samples. Is that a good size for reliable result with this type of analysis?
Thank you for helping.