THOR: targeted high-throughput ortholog reconstructor

Low-coverage genomes (LCGs) are becoming an increasingly important source of data for phylogenitic studies. However, assembly of these genomes is time consuming, difficult and lags behind sequence genaration. THOR is a fast, stringent application for targeted reconstruction of sequence orthlogs inunassembled LCGs. Using a 4x coverage set of mouse whole-genome sequence reads, THOR could partially or completely reconstruct 416/1000 human promoter ortholog regions in similar to 7.3 min/promoter. THOR's reconstruction rate improves markedly with both higher-coverage, and less divergent target species.