Fig 3. Performance of Architect as a model reconstruction tool versus CarveMe and PRIAM (as a model reconstruction tool).

Quality of annotations is computed against the curated models over the genes found in these models, and against UniProt/SwissProt when restricting to those sequences found in the database and with ECs present in the KEGG reaction database. SwissProt was used for E. coli as the sequences were all present in the curated database. Error bars show the 95% confidence interval for precision and recall, each considered as the estimate of a binomial parameter. P-values, computed using Fisher’s exact test, are calculated only between Architect and either CarveMe or PRIAM (with *, ** and *** representing p less than 0.05, 0.005 and 0.0005 respectively).