Public Results 2011




Project Recall - completed tree samples Avg. Robinson-Foulds distance
Broccoli_1.0 12343 +- 141 0.0876 +- 0.0037
EggNOG 8341 0.0749 +- 0.0040
EggNOG-5-Fine-grained 9118 0.0701 +- 0.0037
EggNOG-5-Groups 9204 0.0723 +- 0.0037
EnsemblCompara-e56 9673 0.0845 +- 0.0040
EnsemblCompara-e81 10974 0.0871 +- 0.0037
GETHOGs-2.0 7902 0.0614 +- 0.0037
Hieranoid2 10038 0.0585 +- 0.0032
InParanoid 11925 0.0547 +- 0.0028
InParanoidCore 7808 0.0559 +- 0.0036
MetaPhOrs 13702 0.0848 +- 0.0033
OMA-GETHOGs 8490 0.0562 +- 0.0034
OMA-Groups-2.0 6370 0.0508 +- 0.0039
OMA-Groups-RefSet5 4899 0.0500 +- 0.0044
OMA-Pairs 8239 0.0537 +- 0.0034
OMA-Pairs-2.0 9051 0.0577 +- 0.0035
OrthoFinder-2.0-BLAST 12075 0.0749 +- 0.0033
OrthoFinder-2.0-DIAMOND 11540 0.0725 +- 0.0033
OrthoFinder-2.0-MSA 12535 0.0838 +- 0.0034
Orthoinspector-1.30 10385 0.0624 +- 0.0033
PANTHER-all 13653 0.0739 +- 0.0030
PANTHER-LDO 6666 0.0498 +- 0.0036
PhylomeDB 11866 0.0649 +- 0.0031
Proteinortho_6.0.13 6100 +- 129 0.0566 +- 0.0041
RBH-BBH 9234 0.0672 +- 0.0036
RSD 8880 0.0699 +- 0.0037
SonicParanoid 10446 0.0604 +- 0.0032
SonicParanoid_fast 10124 0.0583 +- 0.0032
SonicParanoid_sensitive 10891 0.0620 +- 0.0032
Project Recall - completed tree samples Avg. Robinson-Foulds distance
Broccoli_1.0 2459 +- 74 0.250 +- 0.013
EggNOG 2062 0.237 +- 0.013
EggNOG-5-Fine-grained 2502 0.257 +- 0.013
EggNOG-5-Groups 2352 0.254 +- 0.013
EnsemblCompara-e56 1867 0.260 +- 0.015
EnsemblCompara-e81 1945 0.251 +- 0.014
GETHOGs-2.0 1400 0.209 +- 0.016
Hieranoid2 2144 0.228 +- 0.013
InParanoid 2315 0.241 +- 0.013
InParanoidCore 1673 0.217 +- 0.014
MetaPhOrs 2347 0.256 +- 0.013
OMA-GETHOGs 1827 0.227 +- 0.014
OMA-Groups-2.0 945 0.196 +- 0.018
OMA-Groups-RefSet5 529 0.194 +- 0.025
OMA-Pairs 1314 0.212 +- 0.016
OMA-Pairs-2.0 1524 0.215 +- 0.015
OrthoFinder-2.0-BLAST 2768 0.266 +- 0.012
OrthoFinder-2.0-DIAMOND 2730 0.266 +- 0.012
OrthoFinder-2.0-MSA 2760 0.268 +- 0.012
Orthoinspector-1.30 2208 0.240 +- 0.013
PANTHER-all 2572 0.284 +- 0.013
PANTHER-LDO 2034 0.243 +- 0.014
PhylomeDB 2380 0.244 +- 0.013
Proteinortho_6.0.13 1105 +- 59 0.181 +- 0.017
RBH-BBH 2210 0.256 +- 0.013
RSD 1945 0.249 +- 0.014
SonicParanoid 1971 0.230 +- 0.013
SonicParanoid_fast 1579 0.208 +- 0.014
SonicParanoid_sensitive 2256 0.236 +- 0.013
Project Recall - completed tree samples Avg. Robinson-Foulds distance
Broccoli_1.0 4314 +- 123 0.264 +- 0.015
EggNOG 2217 0.191 +- 0.016
EggNOG-5-Fine-grained 912 0.096 +- 0.019
EggNOG-5-Groups 8295 0.253 +- 0.015
EnsemblCompara-e56 3562 0.224 +- 0.015
EnsemblCompara-e81 3806 0.241 +- 0.015
GETHOGs-2.0 3751 0.217 +- 0.014
Hieranoid2 3862 0.211 +- 0.014
InParanoid 4661 0.200 +- 0.014
InParanoidCore 2530 0.176 +- 0.014
MetaPhOrs 2848 0.231 +- 0.015
OMA-GETHOGs 4639 0.191 +- 0.014
OMA-Groups-2.0 2023 0.187 +- 0.017
OMA-Groups-RefSet5 1393 0.167 +- 0.019
OMA-Pairs 3163 0.211 +- 0.014
OMA-Pairs-2.0 3881 0.215 +- 0.014
OrthoFinder-2.0-BLAST 4425 0.231 +- 0.015
OrthoFinder-2.0-DIAMOND 4356 0.233 +- 0.015
OrthoFinder-2.0-MSA 4071 0.231 +- 0.015
Orthoinspector-1.30 3974 0.211 +- 0.014
PANTHER-all 4877 0.270 +- 0.015
PANTHER-LDO 3358 0.218 +- 0.014
PhylomeDB 3047 0.205 +- 0.014
Proteinortho_6.0.13 2031 +- 87 0.164 +- 0.016
RBH-BBH 4315 0.209 +- 0.014
RSD 3786 0.200 +- 0.014
SonicParanoid 3313 0.195 +- 0.014
SonicParanoid_fast 2102 0.155 +- 0.015
SonicParanoid_sensitive 4363 0.203 +- 0.014
Project Recall - completed tree samples Avg. Robinson-Foulds distance
Broccoli_1.0 6744 +- 150 0.267 +- 0.010
EggNOG 4182 0.255 +- 0.010
EggNOG-5-Fine-grained 2901 0.257 +- 0.010
EggNOG-5-Groups 7436 0.278 +- 0.011
EnsemblCompara-e56 3649 0.252 +- 0.010
EnsemblCompara-e81 4110 0.276 +- 0.011
GETHOGs-2.0 2863 0.2194 +- 0.0095
Hieranoid2 4122 0.2373 +- 0.0098
InParanoid 4763 0.2400 +- 0.0099
InParanoidCore 2965 0.2314 +- 0.0099
MetaPhOrs 3541 0.269 +- 0.010
OMA-GETHOGs 3534 0.2465 +- 0.0095
OMA-Groups-2.0 1236 0.197 +- 0.014
OMA-Groups-RefSet5 756 0.176 +- 0.017
OMA-Pairs 2274 0.215 +- 0.011
OMA-Pairs-2.0 2513 0.224 +- 0.010
OrthoFinder-2.0-BLAST 6290 0.264 +- 0.010
OrthoFinder-2.0-DIAMOND 6049 0.256 +- 0.010
OrthoFinder-2.0-MSA 6732 0.278 +- 0.010
Orthoinspector-1.30 4931 0.2548 +- 0.0099
PANTHER-all 6724 0.299 +- 0.011
PANTHER-LDO 4769 0.251 +- 0.010
PhylomeDB 3370 0.248 +- 0.010
Proteinortho_6.0.13 1953 +- 85 0.200 +- 0.011
RBH-BBH 5265 0.2474 +- 0.0099
RSD 4446 0.250 +- 0.010
SonicParanoid 3995 0.2404 +- 0.0097
SonicParanoid_fast 3155 0.2330 +- 0.0098
SonicParanoid_sensitive 5051 0.2466 +- 0.0099
Project Recall - completed tree samples Avg. Robinson-Foulds distance
Broccoli_1.0 16129 +- 205 0.2128 +- 0.0073
EggNOG 14397 0.1977 +- 0.0069
EggNOG-5-Fine-grained 13443 0.2049 +- 0.0068
EggNOG-5-Groups 14444 0.2175 +- 0.0074
EnsemblCompara-e56 12071 0.1993 +- 0.0069
EnsemblCompara-e81 13466 0.2091 +- 0.0073
GETHOGs-2.0 11212 0.2061 +- 0.0077
Hieranoid2 11868 0.1899 +- 0.0069
InParanoid 12242 0.2000 +- 0.0071
InParanoidCore 8956 0.1649 +- 0.0062
MetaPhOrs 17402 0.2081 +- 0.0072
OMA-GETHOGs 11549 0.2057 +- 0.0071
OMA-Groups-2.0 7570 0.1764 +- 0.0070
OMA-Groups-RefSet5 6145 0.1803 +- 0.0069
OMA-Pairs 10239 0.2015 +- 0.0074
OMA-Pairs-2.0 11104 0.1999 +- 0.0074
OrthoFinder-2.0-BLAST 18488 0.1984 +- 0.0068
OrthoFinder-2.0-DIAMOND 18717 0.2043 +- 0.0069
OrthoFinder-2.0-MSA 21186 0.2130 +- 0.0072
Orthoinspector-1.30 15242 0.1966 +- 0.0069
PANTHER-all 13464 0.2177 +- 0.0075
PANTHER-LDO 9740 0.1820 +- 0.0068
PhylomeDB 12618 0.1925 +- 0.0067
Proteinortho_6.0.13 8929 +- 168 0.1963 +- 0.0074
RBH-BBH 13972 0.1985 +- 0.0071
RSD 13730 0.1990 +- 0.0070
SonicParanoid 13944 0.1940 +- 0.0069
SonicParanoid_fast 13783 0.1938 +- 0.0070
SonicParanoid_sensitive 14116 0.1945 +- 0.0069
Project Recall - completed tree samples Avg. Robinson-Foulds distance
Broccoli_1.0 19095 +- 213 0.0837 +- 0.0099
EggNOG 14782 0.0787 +- 0.0096
EggNOG-5-Fine-grained 16911 0.090 +- 0.010
EggNOG-5-Groups 16206 0.086 +- 0.010
EnsemblCompara-e56 14892 0.085 +- 0.010
EnsemblCompara-e81 15122 0.094 +- 0.010
GETHOGs-2.0 8900 0.0597 +- 0.0085
Hieranoid2 15201 0.0793 +- 0.0097
InParanoid 16481 0.0767 +- 0.0095
InParanoidCore 13533 0.0607 +- 0.0085
MetaPhOrs 15581 0.0810 +- 0.0098
OMA-GETHOGs 11130 0.0640 +- 0.0088
OMA-Groups-2.0 6291 0.0507 +- 0.0079
OMA-Groups-RefSet5 3584 0.0403 +- 0.0070
OMA-Pairs 8778 0.0637 +- 0.0087
OMA-Pairs-2.0 9932 0.0627 +- 0.0087
OrthoFinder-2.0-BLAST 20207 0.096 +- 0.011
OrthoFinder-2.0-DIAMOND 19651 0.092 +- 0.010
OrthoFinder-2.0-MSA 20314 0.097 +- 0.011
Orthoinspector-1.30 16825 0.0827 +- 0.0099
PANTHER-all 18627 0.108 +- 0.011
PANTHER-LDO 15670 0.0753 +- 0.0095
PhylomeDB 16299 0.0707 +- 0.0092
Proteinortho_6.0.13 8158 +- 162 0.0503 +- 0.0078
RBH-BBH 18304 0.095 +- 0.010
RSD 16608 0.0737 +- 0.0094
SonicParanoid 15043 0.0717 +- 0.0092
SonicParanoid_fast 12112 0.0577 +- 0.0083
SonicParanoid_sensitive 16449 0.0803 +- 0.0097
Project True Positive Rate (TPR) Precision / Positive Predictive Value (PPV)
Broccoli_1.0 0.702 +- 0.067 0.892 +- 0.065
EggNOG 0.641 +- 0.065 0.893 +- 0.063
EggNOG-5-Fine-grained 0.650 +- 0.068 0.842 +- 0.068
EggNOG-5-Groups 0.658 +- 0.068 0.876 +- 0.065
EnsemblCompara-e56 0.660 +- 0.065 0.837 +- 0.064
EnsemblCompara-e81 0.646 +- 0.065 0.839 +- 0.064
GETHOGs-2.0 0.661 +- 0.065 0.885 +- 0.063
Hieranoid2 0.691 +- 0.065 0.883 +- 0.063
InParanoid 0.688 +- 0.065 0.883 +- 0.063
InParanoidCore 0.530 +- 0.066 0.884 +- 0.065
MetaPhOrs 0.741 +- 0.065 0.896 +- 0.063
OMA-GETHOGs 0.743 +- 0.064 0.857 +- 0.063
OMA-Groups-2.0 0.476 +- 0.068 0.881 +- 0.066
OMA-Groups-RefSet5 0.446 +- 0.068 0.879 +- 0.067
OMA-Pairs 0.627 +- 0.066 0.885 +- 0.063
OMA-Pairs-2.0 0.652 +- 0.066 0.883 +- 0.063
OrthoFinder-2.0-BLAST 0.802 +- 0.063 0.889 +- 0.062
OrthoFinder-2.0-DIAMOND 0.761 +- 0.064 0.878 +- 0.063
OrthoFinder-2.0-MSA 0.797 +- 0.064 0.888 +- 0.063
Orthoinspector-1.30 0.701 +- 0.065 0.877 +- 0.063
PANTHER-all 0.775 +- 0.064 0.821 +- 0.063
PANTHER-LDO 0.560 +- 0.066 0.881 +- 0.064
PhylomeDB 0.670 +- 0.068 0.892 +- 0.065
Proteinortho_6.0.13 0.529 +- 0.067 0.887 +- 0.065
RBH-BBH 0.621 +- 0.066 0.884 +- 0.063
RSD 0.572 +- 0.067 0.884 +- 0.064
SonicParanoid 0.688 +- 0.066 0.892 +- 0.063
SonicParanoid_fast 0.656 +- 0.066 0.888 +- 0.064
SonicParanoid_sensitive 0.716 +- 0.065 0.891 +- 0.063
Project True Positive Rate (TPR) Precision / Positive Predictive Value (PPV)
Broccoli_1.0 0.6905 +- 0.0047 0.9473 +- 0.0027
EggNOG 0.5657 +- 0.0051 0.9342 +- 0.0032
EggNOG-5-Fine-grained 0.5297 +- 0.0051 0.9368 +- 0.0033
EggNOG-5-Groups 0.6927 +- 0.0047 0.8673 +- 0.0039
EnsemblCompara-e56 0.4517 +- 0.0051 0.9142 +- 0.0041
EnsemblCompara-e81 0.5052 +- 0.0051 0.9132 +- 0.0039
GETHOGs-2.0 0.6096 +- 0.0050 0.8355 +- 0.0044
Hieranoid2 0.6035 +- 0.0050 0.9255 +- 0.0033
InParanoid 0.6317 +- 0.0049 0.9285 +- 0.0032
InParanoidCore 0.4764 +- 0.0051 0.9523 +- 0.0031
MetaPhOrs 0.6894 +- 0.0047 0.9484 +- 0.0026
OMA-GETHOGs 0.5959 +- 0.0050 0.8900 +- 0.0039
OMA-Groups-2.0 0.3895 +- 0.0050 0.9460 +- 0.0036
OMA-Groups-RefSet5 0.3323 +- 0.0048 0.9506 +- 0.0037
OMA-Pairs 0.5206 +- 0.0051 0.9191 +- 0.0037
OMA-Pairs-2.0 0.5780 +- 0.0050 0.9030 +- 0.0038
OrthoFinder-2.0-BLAST 0.7074 +- 0.0046 0.9274 +- 0.0030
OrthoFinder-2.0-DIAMOND 0.6843 +- 0.0047 0.9177 +- 0.0032
OrthoFinder-2.0-MSA 0.6928 +- 0.0047 0.9305 +- 0.0030
Orthoinspector-1.30 0.6551 +- 0.0049 0.9268 +- 0.0032
PANTHER-all 0.6765 +- 0.0048 0.8743 +- 0.0038
PANTHER-LDO 0.4388 +- 0.0051 0.9494 +- 0.0033
PhylomeDB 0.6232 +- 0.0049 0.9491 +- 0.0028
Proteinortho_6.0.13 0.4353 +- 0.0051 0.9456 +- 0.0034
RBH-BBH 0.4926 +- 0.0051 0.9480 +- 0.0031
RSD 0.4515 +- 0.0051 0.9489 +- 0.0033
SonicParanoid 0.6253 +- 0.0049 0.9248 +- 0.0033
SonicParanoid_fast 0.5908 +- 0.0050 0.9273 +- 0.0033
SonicParanoid_sensitive 0.6411 +- 0.0049 0.9260 +- 0.0032
Project Recall - Number of Ortholog Relations Precision - Avg. Schlicker Similarity
Broccoli_1.0 139762 0.4685 +- 0.0012
EggNOG 77973 0.4991 +- 0.0016
EggNOG-5-Fine-grained 70393 0.5017 +- 0.0017
EggNOG-5-Groups 240192 0.45025 +- 0.00090
EnsemblCompara-e56 72387 0.4997 +- 0.0017
EnsemblCompara-e81 90848 0.4940 +- 0.0015
GETHOGs-2.0 126262 0.4622 +- 0.0013
Hieranoid2 104159 0.4933 +- 0.0014
InParanoid 126903 0.4824 +- 0.0012
InParanoidCore 66163 0.5098 +- 0.0017
MetaPhOrs 135207 0.4756 +- 0.0012
OMA-GETHOGs 123176 0.4815 +- 0.0012
OMA-Groups-2.0 47767 0.5156 +- 0.0021
OMA-Groups-RefSet5 38341 0.5202 +- 0.0023
OMA-Pairs 75621 0.5005 +- 0.0016
OMA-Pairs-2.0 88996 0.4910 +- 0.0015
OrthoFinder-2.0-BLAST 124952 0.4838 +- 0.0013
OrthoFinder-2.0-DIAMOND 117641 0.4835 +- 0.0013
OrthoFinder-2.0-MSA 119019 0.4865 +- 0.0013
Orthoinspector-1.30 103398 0.4957 +- 0.0014
PANTHER-all 174752 0.4658 +- 0.0011
PANTHER-LDO 61595 0.5118 +- 0.0018
PhylomeDB 104302 0.4900 +- 0.0014
Proteinortho_6.0.13 54545 0.5153 +- 0.0019
RBH-BBH 74024 0.5076 +- 0.0016
RSD 63070 0.5121 +- 0.0018
SonicParanoid 113834 0.4835 +- 0.0013
SonicParanoid_fast 102624 0.4825 +- 0.0014
SonicParanoid_sensitive 121654 0.4836 +- 0.0013
Project Recall - Number of Ortholog Relations Precision - Avg. Schlicker Similarity
Broccoli_1.0 121754 0.8814 +- 0.0013
EggNOG 73681 0.97185 +- 0.00082
EggNOG-5-Fine-grained 38899 0.98101 +- 0.00097
EggNOG-5-Groups 192118 0.8514 +- 0.0012
EnsemblCompara-e56 86605 0.9528 +- 0.0010
EnsemblCompara-e81 97614 0.9471 +- 0.0010
GETHOGs-2.0 97989 0.9328 +- 0.0011
Hieranoid2 92636 0.95871 +- 0.00088
InParanoid 113163 0.9295 +- 0.0011
InParanoidCore 76997 0.97461 +- 0.00077
MetaPhOrs 98829 0.9085 +- 0.0013
OMA-GETHOGs 110683 0.9387 +- 0.0010
OMA-Groups-2.0 57444 0.98353 +- 0.00074
OMA-Groups-RefSet5 45746 0.98693 +- 0.00072
OMA-Pairs 79193 0.97378 +- 0.00079
OMA-Pairs-2.0 86726 0.96585 +- 0.00085
OrthoFinder-2.0-BLAST 100695 0.94899 +- 0.00097
OrthoFinder-2.0-DIAMOND 97751 0.95719 +- 0.00091
OrthoFinder-2.0-MSA 96760 0.95644 +- 0.00094
Orthoinspector-1.30 102251 0.95403 +- 0.00091
PANTHER-all 120204 0.9370 +- 0.0010
PANTHER-LDO 68457 0.97329 +- 0.00086
PhylomeDB 89387 0.9524 +- 0.0010
Proteinortho_6.0.13 66351 0.98157 +- 0.00071
RBH-BBH 88379 0.95849 +- 0.00095
RSD 81280 0.96287 +- 0.00093
SonicParanoid 101294 0.9394 +- 0.0010
SonicParanoid_fast 87443 0.9304 +- 0.0012
SonicParanoid_sensitive 110620 0.9339 +- 0.0010