Table 1

Annotation comparison methods
Method Pros Cons
Manual comparison minimal overhead extremely tedious; error prone; unscalable
Genome browser intuitive interface; visual assessment of individual loci visual assessments imprecise; extensive overhead; little or no automation
Eval detailed statistics; visual assessment of statistic distributions; scales fairly well for large data sets; can compare multiple predictions to a single reference older software; relatively slow; only summary statistics are reported, while stats for individual loci are discarded
ParsEval detailed statistics provided, not only as a summary but for individual loci as well; scales well for large data sets; fast, efficient, and portable only capable of comparing a single pair of annotations

Various approaches to comparing alternative sources of gene structure annotations, with a brief description of the associated pros and cons.

Standage and Brendel

Standage and Brendel BMC Bioinformatics 2012 13:187   doi:10.1186/1471-2105-13-187

Open Data