Extended Data Fig. 9: FUGAsseM predicted more protein families with informative GO annotations compared to eggNOG-mapper.
From: Predicting functions of uncharacterized gene products from microbial communities
(a-c) Total number of annotated protein families by FUGAsseM (full model with integrated data) and eggNOG-mapper, including proteins with and without homologs to UniProtKB proteins. Only predictions with high confidence (prediction probability ≥0.75 for FUGAsseM, e-value < 0.001 for eggNOG-mapper) are included for (a) Biological Processes, (b) Molecular Functions, and (c) Cellular Components. (d-f) Distribution of annotated protein families with high confidence per species are shown (n = 620 total method-species pairs). Statistical analysis was performed using two-sided unpaired Wilcoxon tests with unadjusted P values reported. Box plots display the median (line at the 50th percentile), interquartile range (box spanning the 25th to 75th percentiles), whiskers (extending to 1.5× IQR), and outliers (values beyond 1.5× IQR from the quartiles).
