Eval is a flexible tool for analyzing the performance of gene-structure prediction programs. It provides summaries and graphical distributions for many statistics describing any set of annotations, regardless of their source. It also compares sets of predictions to standard annotations and to one another.
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Keibler, E. and M.R. Brent. 2003.
“Eval: A software package for analysis of genome annotations.”
BMC Bioinformatics 4:50.