gt-eval - Compare annotation files and show accuracy measures (prediction vs. reference).
gt eval reference_file prediction_file
The program shows sensitivity and specificity values for certain feature types (e.g., gene, mRNA, and exon). For some feature types the number of missing and wrong features of that type is also shown. Thereby, “missing” means the number of features of that type from the “reference” without overlap to a feature of that type from the “prediction”. Vice versa, “wrong” denotes the number of features of that type from the “prediction” without overlap to a feature of that type from the “reference”.
Report bugs to https://github.com/genometools/genometools/issues.