| retrogenomics.uni-muenster.de | User Interfaces |
| ExoPLOT | expression of alternatively spliced TEs |
| paPAML | analyses of positive and negative selection |
| CDS-extractor | NCBI download of coding sequences (CDS) |
| 2-way | generation of genome pairwise alignments |
| n-way | presence/absence analyses of genome pairwise alignments |
| GPAC | presence/absence analyses of multi-genome alignments |
| 4-LIN | presence/absence significance for four lineage phylogenies |
| KKSC | presence/absence significance for three lineage phylogenies |
| TinT | transposition in transposition analysis |
| UCSC2FASTA | transfers UCSC alignments into fasta |
| pde2fasta | transfers pde (PhyDE) files into fasta |
| fastCOEX | extraction and labeling of fasta sequences |
