What are the Challenges in Read Depth Normalization?
There are several challenges associated with read depth normalization in cancer research:
1. Heterogeneity: Cancer samples are often highly heterogeneous, containing a mix of normal and cancerous cells, making normalization complex. 2. Technical Variability: Differences in library preparation, sequencing platforms, and batch effects can introduce variability. 3. Biological Variability: Tumor samples may have varying levels of amplifications and deletions, affecting read depth.
