What Challenges Exist in Variant Calling for Cancer?
Variant calling in cancer poses several challenges:
Heterogeneity: Cancer is often heterogeneous, with different cells within the same tumor having different mutations. Coverage and Depth: Adequate sequencing depth is required to detect low-frequency variants. False Positives/Negatives: Balancing sensitivity and specificity to minimize erroneous variant calls. Complex Variants: Structural variants and complex rearrangements can be difficult to detect accurately.