Yao-Chung has developed an R package called TEKRABber to compare relationships between transposable elements (TEs) and genes between species. It is now available from Bioconductor:https://bioconductor.org/packages/3.15/bioc/html/TEKRABber.html.
Using RNA-Seq data, the package is normalizing expression values for genes and TEs across species and calculates correlations between TEs and genes. These correlations can then be compared between species to detect potential evolutionary differences in TE regulation and/or TEs influence on gene expression.
The name of the package derived from the idea that TEs are often repressed by KRAB-ZNF proteins.