TEENA, is a integrated web server for Transposable Element ENrichment Analysis. For this purpose, it implemented a highly-efficient TEENA pipeline and integrated the genome, gene and TE annotations for various model and non-model organisms.

ExprX is an R package to steamline interspecies differential expression analysis. Taking TPM or FPKM/RPKM files as input, it provides modules for data loading, ortholog matching, normalization, differential analysis and visualization.
Citation: Sun et al., Mol Biol Evol, 2021