PseudoDomain is used to identify processed pseudogenes of mammalian genomes. Unlike most existing tools, it is based on profile HMM-based homology search. It searches genomic sequences against protein domain database.Therefore, when protein annotations of the genome is not available, it still can accurately identify processed pseudogenes.
:: MORE INFORMATION
Y. Zhang and Y. Sun,
PseudoDomain: identification of processed pseudogenes based on protein domain classification,
ACM Conference on Bioinformatics, Computational Biology and Biomedicine (ACM BCB), 2012. Pages 178-185