What is the difference between Grail and GrailEXP?
Grail 1.3 is a suite of tools developed at the Computational Biology section at ORNL. It recognizes simple repeats, polyas, promoters, exon candidates, genes, and complex repetitive elements. An X client (XGrail) is among the most popular ways to access this system. Grail’s gene modeling is based merely on how the exon candidates can be spliced together to form genes, not on any kind of similarity search. GrailEXP features a Grail-like exon finder (with improved splice site recognition and other minor changes) adapted from the Grail 1.3 code. However, the gene modeling has been vastly improved by searching a database of known gene messages (complete and partial) and building gene models based on the corresponding alignments. It is these two additional powerful tools (the gene message alignment program and the gene assembly program) which distinguish GrailEXP from Grail. In addition, the Smith-Waterman-like complex repeat Grail finder, which takes forever to run, has been replaced by a
