| Genotype Variants Pipeline | SNP genotyping |
---|---|---|
Implementation | NGS data: WGS/WES/RNA-seq | Only microarrays |
Computational Resources | High for WES/WGS | Low |
Rare Variant Detection | Yes | Difficult |
Novel variant discovery | Yes | No |
QTL detection | Yes, Using RNA-Seq (eQTLs) | Yes, using genetic linkage studies. |
Sensibility | Increasing power with more depth | Fixed |
Visualisation | Genome wide-plots in R (free) | Programatically or included in commercial programs |