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Table 3 Summary of external evaluations for unsupervised methods

From: A comparison framework and guideline of clustering methods for mass cytometry data

DatasetsMethodsExternal evaluations
AccuracyF-measureNMIARI
Cell CycleAccense0.3529 ± 0.04710.3500 ± 0.06360.2490 ± 0.02400.1682 ± 0.0395
PhenoGraph0.2309 ± 0.02680.2789 ± 0.01960.1364 ± 0.00870.0683 ± 0.0074
Xshift0.3622 ± 0.04190.3970 ± 0.03830.1710 ± 0.01650.0752 ± 0.0353
kmeans0.3969 ± 0.00210.4224 ± 0.00190.0963 ± 0.00160.0681 ± 0.0016
flowMeans0.3055 ± 0.00610.3506 ± 0.00510.1849 ± 0.00470.0694 ± 0.0058
FlowSOM0.6605 ± 0.00210.6897 ± 0.00290.1040 ± 0.00350.1171 ± 0.0025
DEPECHE0.2808 ± 0.01260.3551 ± 0.01100.1361 ± 0.02460.0546 ± 0.0197
ColonAccense0.3209 ± 0.03530.3495 ± 0.04420.4504 ± 0.02860.2304 ± 0.0304
PhenoGraph0.3772 ± 0.02010.3994 ± 0.01370.4254 ± 0.00730.2696 ± 0.0094
Xshift0.3187 ± 0.01670.3094 ± 0.01240.3763 ± 0.00760.2399 ± 0.0299
kmeans0.4480 ± 0.02160.4951 ± 0.00860.4688 ± 0.00730.3235 ± 0.0132
flowMeans0.5095 ± 0.08940.5901 ± 0.05820.4705 ± 0.06190.3724 ± 0.1125
FlowSOM0.5597 ± 0.02840.5888 ± 0.02300.5303 ± 0.01570.4157 ± 0.0288
DEPECHE0.5902 ± 0.01860.6898 ± 0.01320.4694 ± 0.02390.5042 ± 0.0188
Levine13dimAccense0.6055 ± 0.09460.6745 ± 0.09290.7486 ± 0.06030.6408 ± 0.1034
PhenoGraph0.8880 ± 0.00150.9123 ± 0.01670.8639 ± 0.00780.8884 ± 0.0159
Xshift0.7573 ± 0.00910.7606 ± 0.01250.7359 ± 0.01180.7465 ± 0.0116
kmeans0.5684 ± 0.05040.6293 ± 0.03250.7070 ± 0.01930.5721 ± 0.0465
flowMeans0.8470 ± 0.04860.8842 ± 0.03430.8352 ± 0.02820.8349 ± 0.0459
FlowSOM0.8540 ± 0.02350.8760 ± 0.02000.8590 ± 0.00970.8732 ± 0.0168
DEPECHE0.6929 ± 0.01420.8010 ± 0.00770.6687 ± 0.00990.6571 ± 0.0118
Levine32dimAccense0.5514 ± 0.07940.6008 ± 0.06270.6876 ± 0.03890.5289 ± 0.0740
PhenoGraph0.6369 ± 0.02530.7062 ± 0.02130.7410 ± 0.01420.6437 ± 0.0240
Xshift0.7543 ± 0.06050.7706 ± 0.04690.7690 ± 0.03230.7593 ± 0.0737
kmeans0.5753 ± 0.04130.6748 ± 0.02310.7302 ± 0.01150.6405 ± 0.0638
flowMeans0.9216 ± 0.03180.9279 ± 0.03370.9115 ± 0.02900.9397 ± 0.0342
FlowSOM0.8787 ± 0.09750.8979 ± 0.06640.8840 ± 0.06000.8803 ± 0.1267
DEPECHE0.8931 ± 0.00100.9231 ± 0.00090.8436 ± 0.00080.9297 ± 0.0009
MuscleAccense0.3687 ± 0.06630.4072 ± 0.07430.3953 ± 0.03910.2397 ± 0.0759
PhenoGraph0.3930 ± 0.03250.4336 ± 0.02490.3912 ± 0.00830.2694 ± 0.0261
Xshift0.5119 ± 0.05910.5133 ± 0.04630.3882 ± 0.01900.3572 ± 0.0405
kmeans0.6113 ± 0.00460.6207 ± 0.00450.4958 ± 0.00300.4243 ± 0.0055
flowMeans0.7880 ± 0.01930.7928 ± 0.00890.5841 ± 0.01450.6364 ± 0.0347
FlowSOM0.8210 ± 0.00680.8286 ± 0.00730.6470 ± 0.00720.6688 ± 0.0175
DEPECHE0.8346 ± 0.00180.8850 ± 0.00190.5792 ± 0.00150.7074 ± 0.0035
Samusik01Accense0.5868 ± 0.05020.6376 ± 0.04000.7165 ± 0.02370.5574 ± 0.0290
PhenoGraph0.9260 ± 0.04120.9249 ± 0.03440.8979 ± 0.02850.9250 ± 0.0526
Xshift0.8909 ± 0.04850.9091 ± 0.03240.8742 ± 0.01960.8781 ± 0.0561
kmeans0.4837 ± 0.05720.5535 ± 0.04010.6437 ± 0.01860.4655 ± 0.0482
flowMeans0.9064 ± 0.01630.9099 ± 0.01630.8818 ± 0.01370.9206 ± 0.0045
FlowSOM0.8386 ± 0.06930.8417 ± 0.06680.8185 ± 0.06390.8561 ± 0.0732
DEPECHE0.8300 ± 0.00470.8677 ± 0.00470.7271 ± 0.00500.8298 ± 0.0068
  1. Data shown as mean ± standard deviation