What software and algorithms are used for gene expression evaluation in NGS WGS experiments?

Question

[shark29]

What software and algorithms are used for gene expression evaluation in NGS WGS experiments?

Is it possible to assess a degree of gene expression in alignment-variant-calling experiments?

[WouterDeCoster]

How would you quantify gene expression in whole genome sequencing? Are you confusing things with RNA-seq?

Since you sequence DNA in WGS there is no information of gene expression.