Supported databases and taxonomic levels¶
The underpinnings of deepnog are database-agnostic.
However, the tool requires specifically trained models for each database.
If a database comprises multiple taxonomic levels,
individual models are necessary. For example, eggNOG 5 features over
400 levels. The following list provides the currently available databases.
(Alternatively, inspect deepnog_config.yml which will always contain
up-to-date information.)
eggNOG 5¶
architecture |
database |
tax |
macro_precision |
macro_recall |
macro_f1 |
accuracy |
mcc |
|---|---|---|---|---|---|---|---|
deepnog |
eggNOG5 |
1 |
0.9743 |
0.9149 |
0.9369 |
0.9383 |
0.9383 |
deepnog |
eggNOG5 |
2 |
0.9725 |
0.9374 |
0.9504 |
0.9463 |
0.9463 |
deepnog |
eggNOG5 |
29 |
1.0000 |
1.0000 |
1.0000 |
1.0000 |
0.0000 |
deepnog |
eggNOG5 |
237 |
1.0000 |
1.0000 |
1.0000 |
1.0000 |
1.0000 |
deepnog |
eggNOG5 |
468 |
1.0000 |
1.0000 |
1.0000 |
1.0000 |
1.0000 |
deepnog |
eggNOG5 |
506 |
1.0000 |
1.0000 |
1.0000 |
1.0000 |
1.0000 |
deepnog |
eggNOG5 |
561 |
1.0000 |
1.0000 |
1.0000 |
1.0000 |
0.0000 |
deepnog |
eggNOG5 |
772 |
0.9375 |
0.9167 |
0.9143 |
0.9000 |
0.8768 |
deepnog |
eggNOG5 |
815 |
0.7615 |
0.7685 |
0.7489 |
0.7660 |
0.7431 |
deepnog |
eggNOG5 |
976 |
0.9876 |
0.9829 |
0.9829 |
0.9844 |
0.9844 |
deepnog |
eggNOG5 |
1117 |
0.9915 |
0.9890 |
0.9887 |
0.9900 |
0.9900 |
deepnog |
eggNOG5 |
1150 |
0.9630 |
0.9630 |
0.9556 |
0.9600 |
0.9557 |
deepnog |
eggNOG5 |
1224 |
0.9767 |
0.9683 |
0.9690 |
0.9797 |
0.9797 |
deepnog |
eggNOG5 |
1236 |
0.9865 |
0.9821 |
0.9821 |
0.9878 |
0.9878 |
deepnog |
eggNOG5 |
1239 |
0.9724 |
0.9649 |
0.9651 |
0.9783 |
0.9783 |
deepnog |
eggNOG5 |
1268 |
1.0000 |
1.0000 |
1.0000 |
1.0000 |
1.0000 |
deepnog |
eggNOG5 |
1297 |
1.0000 |
1.0000 |
1.0000 |
1.0000 |
0.0000 |
deepnog |
eggNOG5 |
1386 |
0.9748 |
0.9758 |
0.9716 |
0.9778 |
0.9776 |
deepnog |
eggNOG5 |
1653 |
0.9015 |
0.8485 |
0.8325 |
0.8519 |
0.8443 |
deepnog |
eggNOG5 |
1762 |
0.9942 |
0.9767 |
0.9812 |
0.9846 |
0.9844 |
deepnog |
eggNOG5 |
2157 |
0.9755 |
0.9672 |
0.9669 |
0.9670 |
0.9669 |
deepnog |
eggNOG5 |
2759 |
0.9776 |
0.9354 |
0.9506 |
0.9410 |
0.9410 |
deepnog |
eggNOG5 |
3699 |
0.9809 |
0.9564 |
0.9614 |
0.9663 |
0.9657 |
deepnog |
eggNOG5 |
4447 |
0.9648 |
0.9498 |
0.9490 |
0.9517 |
0.9513 |
deepnog |
eggNOG5 |
4751 |
0.9852 |
0.9807 |
0.9800 |
0.9814 |
0.9813 |
deepnog |
eggNOG5 |
4776 |
0.9000 |
0.7500 |
0.7778 |
0.8333 |
0.6325 |
deepnog |
eggNOG5 |
4890 |
0.9869 |
0.9824 |
0.9817 |
0.9820 |
0.9820 |
deepnog |
eggNOG5 |
4891 |
0.9692 |
0.9551 |
0.9544 |
0.9444 |
0.9419 |
deepnog |
eggNOG5 |
5204 |
0.8615 |
0.8404 |
0.8327 |
0.8649 |
0.8605 |
deepnog |
eggNOG5 |
5338 |
1.0000 |
1.0000 |
1.0000 |
1.0000 |
1.0000 |
deepnog |
eggNOG5 |
5653 |
1.0000 |
1.0000 |
1.0000 |
1.0000 |
1.0000 |
deepnog |
eggNOG5 |
5794 |
1.0000 |
1.0000 |
1.0000 |
1.0000 |
0.0000 |
deepnog |
eggNOG5 |
5878 |
1.0000 |
1.0000 |
1.0000 |
1.0000 |
0.0000 |
deepnog |
eggNOG5 |
6231 |
0.8815 |
0.8315 |
0.8469 |
0.8545 |
0.8460 |
deepnog |
eggNOG5 |
6236 |
1.0000 |
1.0000 |
1.0000 |
1.0000 |
1.0000 |
deepnog |
eggNOG5 |
6656 |
0.9557 |
0.9278 |
0.9313 |
0.9380 |
0.9376 |
deepnog |
eggNOG5 |
7147 |
0.9808 |
0.9615 |
0.9634 |
0.9722 |
0.9704 |
deepnog |
eggNOG5 |
7214 |
1.0000 |
1.0000 |
1.0000 |
1.0000 |
1.0000 |
deepnog |
eggNOG5 |
7711 |
0.9840 |
0.9763 |
0.9759 |
0.9763 |
0.9763 |
deepnog |
eggNOG5 |
7742 |
0.9869 |
0.9809 |
0.9804 |
0.9802 |
0.9802 |
deepnog |
eggNOG5 |
7898 |
0.9881 |
0.9762 |
0.9773 |
0.9911 |
0.9895 |
deepnog |
eggNOG5 |
8459 |
1.0000 |
1.0000 |
1.0000 |
1.0000 |
0.0000 |
deepnog |
eggNOG5 |
9263 |
1.0000 |
1.0000 |
1.0000 |
1.0000 |
0.0000 |
deepnog |
eggNOG5 |
9443 |
1.0000 |
1.0000 |
1.0000 |
1.0000 |
1.0000 |
deepnog |
eggNOG5 |
9989 |
1.0000 |
1.0000 |
1.0000 |
1.0000 |
1.0000 |
deepnog |
eggNOG5 |
28211 |
0.9849 |
0.9805 |
0.9800 |
0.9872 |
0.9872 |
deepnog |
eggNOG5 |
28216 |
0.9944 |
0.9932 |
0.9929 |
0.9933 |
0.9933 |
deepnog |
eggNOG5 |
28221 |
0.9803 |
0.9733 |
0.9728 |
0.9710 |
0.9709 |
deepnog |
eggNOG5 |
28890 |
0.9898 |
0.9853 |
0.9848 |
0.9858 |
0.9857 |
deepnog |
eggNOG5 |
29547 |
1.0000 |
1.0000 |
1.0000 |
1.0000 |
1.0000 |
deepnog |
eggNOG5 |
31979 |
0.9833 |
0.9736 |
0.9745 |
0.9729 |
0.9728 |
deepnog |
eggNOG5 |
32066 |
1.0000 |
1.0000 |
1.0000 |
1.0000 |
0.0000 |
deepnog |
eggNOG5 |
33090 |
0.9779 |
0.9679 |
0.9683 |
0.9698 |
0.9698 |
deepnog |
eggNOG5 |
33154 |
0.9788 |
0.9592 |
0.9639 |
0.9637 |
0.9637 |
deepnog |
eggNOG5 |
33208 |
0.9783 |
0.9625 |
0.9656 |
0.9634 |
0.9634 |
deepnog |
eggNOG5 |
33213 |
0.9775 |
0.9661 |
0.9670 |
0.9660 |
0.9660 |
deepnog |
eggNOG5 |
33342 |
1.0000 |
1.0000 |
1.0000 |
1.0000 |
1.0000 |
deepnog |
eggNOG5 |
33554 |
1.0000 |
1.0000 |
1.0000 |
1.0000 |
1.0000 |
deepnog |
eggNOG5 |
33958 |
0.9865 |
0.9813 |
0.9803 |
0.9804 |
0.9802 |
deepnog |
eggNOG5 |
35493 |
0.9835 |
0.9749 |
0.9753 |
0.9750 |
0.9750 |
deepnog |
eggNOG5 |
38820 |
0.9712 |
0.9455 |
0.9474 |
0.9514 |
0.9508 |
deepnog |
eggNOG5 |
40674 |
0.9889 |
0.9828 |
0.9832 |
0.9832 |
0.9832 |
deepnog |
eggNOG5 |
41294 |
0.9667 |
0.9479 |
0.9472 |
0.9535 |
0.9512 |
deepnog |
eggNOG5 |
50557 |
0.9354 |
0.9184 |
0.9171 |
0.9107 |
0.9097 |
deepnog |
eggNOG5 |
68525 |
0.9875 |
0.9839 |
0.9836 |
0.9839 |
0.9839 |
deepnog |
eggNOG5 |
69277 |
1.0000 |
1.0000 |
1.0000 |
1.0000 |
0.0000 |
deepnog |
eggNOG5 |
71274 |
0.9583 |
0.9167 |
0.9206 |
0.9655 |
0.9581 |
deepnog |
eggNOG5 |
72273 |
1.0000 |
1.0000 |
1.0000 |
1.0000 |
0.0000 |
deepnog |
eggNOG5 |
72275 |
1.0000 |
1.0000 |
1.0000 |
1.0000 |
0.0000 |
deepnog |
eggNOG5 |
80864 |
0.9500 |
0.8750 |
0.8889 |
0.9231 |
0.8977 |
deepnog |
eggNOG5 |
82115 |
0.9774 |
0.9519 |
0.9536 |
0.9603 |
0.9597 |
deepnog |
eggNOG5 |
85004 |
1.0000 |
1.0000 |
1.0000 |
1.0000 |
1.0000 |
deepnog |
eggNOG5 |
85010 |
1.0000 |
1.0000 |
1.0000 |
1.0000 |
1.0000 |
deepnog |
eggNOG5 |
85013 |
1.0000 |
1.0000 |
1.0000 |
1.0000 |
0.0000 |
deepnog |
eggNOG5 |
85023 |
1.0000 |
1.0000 |
1.0000 |
1.0000 |
0.0000 |
deepnog |
eggNOG5 |
85025 |
0.9710 |
0.9829 |
0.9731 |
0.9697 |
0.9686 |
deepnog |
eggNOG5 |
85026 |
1.0000 |
1.0000 |
1.0000 |
1.0000 |
0.0000 |
deepnog |
eggNOG5 |
91061 |
0.9862 |
0.9837 |
0.9827 |
0.9886 |
0.9886 |
deepnog |
eggNOG5 |
91561 |
1.0000 |
1.0000 |
1.0000 |
1.0000 |
1.0000 |
deepnog |
eggNOG5 |
91835 |
0.9617 |
0.9562 |
0.9534 |
0.9549 |
0.9543 |
deepnog |
eggNOG5 |
112252 |
1.0000 |
1.0000 |
1.0000 |
1.0000 |
0.0000 |
deepnog |
eggNOG5 |
117743 |
0.9930 |
0.9912 |
0.9906 |
0.9905 |
0.9905 |
deepnog |
eggNOG5 |
117747 |
1.0000 |
1.0000 |
1.0000 |
1.0000 |
0.0000 |
deepnog |
eggNOG5 |
119060 |
0.9827 |
0.9634 |
0.9677 |
0.9652 |
0.9645 |
deepnog |
eggNOG5 |
119089 |
0.9706 |
0.9412 |
0.9437 |
0.9600 |
0.9579 |
deepnog |
eggNOG5 |
135613 |
1.0000 |
1.0000 |
1.0000 |
1.0000 |
1.0000 |
deepnog |
eggNOG5 |
135614 |
1.0000 |
1.0000 |
1.0000 |
1.0000 |
1.0000 |
deepnog |
eggNOG5 |
135619 |
1.0000 |
1.0000 |
1.0000 |
1.0000 |
1.0000 |
deepnog |
eggNOG5 |
135623 |
1.0000 |
1.0000 |
1.0000 |
1.0000 |
1.0000 |
deepnog |
eggNOG5 |
147545 |
1.0000 |
1.0000 |
1.0000 |
1.0000 |
1.0000 |
deepnog |
eggNOG5 |
147550 |
0.8464 |
0.8452 |
0.8318 |
0.8611 |
0.8537 |
deepnog |
eggNOG5 |
155619 |
0.9500 |
0.9000 |
0.9042 |
0.9310 |
0.9242 |
deepnog |
eggNOG5 |
183963 |
0.9685 |
0.9435 |
0.9455 |
0.9468 |
0.9457 |
deepnog |
eggNOG5 |
186801 |
0.9870 |
0.9827 |
0.9826 |
0.9852 |
0.9851 |
deepnog |
eggNOG5 |
186822 |
0.9895 |
0.9825 |
0.9832 |
0.9805 |
0.9802 |
deepnog |
eggNOG5 |
186928 |
1.0000 |
1.0000 |
1.0000 |
1.0000 |
1.0000 |
deepnog |
eggNOG5 |
200643 |
0.9895 |
0.9855 |
0.9853 |
0.9843 |
0.9843 |
deepnog |
eggNOG5 |
201174 |
0.9840 |
0.9795 |
0.9796 |
0.9836 |
0.9836 |
deepnog |
eggNOG5 |
203691 |
1.0000 |
1.0000 |
1.0000 |
1.0000 |
1.0000 |
deepnog |
eggNOG5 |
204441 |
0.9583 |
0.9167 |
0.9206 |
0.9565 |
0.9439 |
deepnog |
eggNOG5 |
204457 |
0.9497 |
0.9406 |
0.9351 |
0.9425 |
0.9409 |
deepnog |
eggNOG5 |
213115 |
0.9524 |
0.8889 |
0.8889 |
0.9091 |
0.8976 |
deepnog |
eggNOG5 |
267890 |
1.0000 |
1.0000 |
1.0000 |
1.0000 |
0.0000 |
deepnog |
eggNOG5 |
314146 |
0.9810 |
0.9613 |
0.9634 |
0.9630 |
0.9626 |
deepnog |
eggNOG5 |
355688 |
1.0000 |
1.0000 |
1.0000 |
1.0000 |
0.0000 |
deepnog |
eggNOG5 |
541000 |
1.0000 |
1.0000 |
1.0000 |
1.0000 |
1.0000 |
deepnog |
eggNOG5 |
544448 |
0.9333 |
0.9333 |
0.9200 |
0.9231 |
0.9104 |
deepnog |
eggNOG5 |
768503 |
1.0000 |
1.0000 |
1.0000 |
1.0000 |
1.0000 |
deepnog |
eggNOG5 |
909932 |
1.0000 |
1.0000 |
1.0000 |
1.0000 |
1.0000 |
COG 2020¶
architecture |
database |
tax |
macro_precision |
macro_recall |
macro_f1 |
accuracy |
mcc |
|---|---|---|---|---|---|---|---|
deepnog |
cog2020 |
1 |
0.9334 |
0.9043 |
0.9125 |
0.9391 |
0.9390 |
Performance estimates are based on 96%/2%/2% stratified train/validation/test splits of all sequences within the corresponding database and tax. level. This likely overestimates generalization performance for distant homologs. See the research paper for details.