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CREMI

MICCAI Challenge on
Circuit Reconstruction from Electron Microscopy Images

Leaderboard Neuron Segmentation

Results for the neuron segmentation category, averaged over all samples.

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Group Submission CREMI score VOI split VOI merge ARAND
JRC MTLSD_L 0.318 0.386 0.153 0.190
VIDAR mala_py 0.696 1.446 0.153 0.307
PNI RS-UNet2 0.246 0.318 0.158 0.127
PCH UNet_dip 0.310 0.501 0.158 0.146
IAL CMaskSP4 0.280 0.371 0.159 0.149
IAL CMaskMWS 0.314 0.361 0.162 0.196
JRC MALA v1 0.327 0.524 0.165 0.156
DIVE MSTW 0.537 0.915 0.168 0.268
JRC MALALMC2 0.294 0.400 0.168 0.154
JRC MALAMC 0.317 0.497 0.170 0.152
VIDAR mala_py2 0.675 1.365 0.174 0.300
IAL CMaskMC 0.305 0.341 0.175 0.184
PCH UNet_dim 0.312 0.513 0.180 0.141
IAL CMaskSP1 0.317 0.360 0.186 0.187
IAL UnetLRLC 0.325 0.463 0.188 0.164
DIVE CRNNGate 0.514 1.191 0.196 0.194
PCH ori_x0 0.661 1.409 0.204 0.272
IAL CMaskSP2 0.327 0.339 0.205 0.201
IAL LMC V1 0.399 0.646 0.211 0.187
DIVE seg7 0.717 1.398 0.232 0.324
DIVE seg9 0.711 1.381 0.234 0.322
DIVE seg8 0.717 1.388 0.239 0.325
DIVE seg2 0.735 1.438 0.239 0.330
DIVE seg1 0.745 1.461 0.242 0.333
DIVE seg5 0.730 1.423 0.243 0.328

Legend

CREMI score
The geometric mean of (VOI split + VOI merge) and ARAND.
VOI split and merge
The Variation of Information between a segmentation X and ground truth Y. The split and merge parts correspond to the conditional entropies H(X|Y) and H(Y|X), respectively.
ARAND
The Adapted Rand Error, i.e., 1.0 - Rand F-Score.

For each value, lower is better.

Leaderboard Synaptic Cleft Detection

Results for the synaptic cleft detection category, averaged over all samples.

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Group Submission CREMI score FP FN 1 - F-score ADGT ADF
IAL unaries 150.64 175624.3 60151.3 0.327 213.52 87.77
DKFZ-MIC nnUNet 74.96 49914.0 18981.3 0.117 64.46 85.46
lbdl lb_thicc 59.04 107211.3 234.0 0.190 109.17 8.91
lbdl lb_lst 64.22 118160.0 0.0 0.209 121.50 6.93
IAL full_mod 137.73 153335.3 61967.7 0.310 176.37 99.09
DIVE exp19lst 90.80 25114.7 21554.0 0.107 117.39 64.21
DIVE exp18_la 284.83 684532.0 0.0 0.493 564.72 4.94
DIVE exp18_be 136.63 8797.3 0.0 0.014 247.19 26.08
DIVE ex19t5 315.97 64192.0 1757.3 0.112 600.79 31.15
DIVE ex19t2 283.68 173078.7 0.0 0.201 551.77 15.60
DIVE cleftlol 179.28 723352.7 2716.7 0.375 334.05 24.51
DIVE cleftloh 194.25 22502.0 67513.7 0.236 102.22 286.27
DIVE cleft_lb 139.19 284326.0 0.0 0.349 265.87 12.52
DIVE cleft_hi 107.24 44844.3 52063.7 0.158 94.14 120.33
DIVE cleft_A+ 199.35 378215.7 0.0 0.386 395.99 2.72
DIVE cleft 88.46 97220.7 21239.3 0.172 139.74 37.18
DIVE clefitlo 151.12 105664.7 32928.0 0.220 190.20 112.05
DIVE celft_1 77.03 80978.3 20639.3 0.162 121.03 33.03
DIVE WeitUNet 78.12 54372.7 24480.3 0.128 71.51 84.73
SDG Unet2 63.92 202177.7 13156.0 0.256 97.64 30.19
SDG Unet1 75.28 185988.3 16897.3 0.230 84.34 66.22
SDG Unet0 171.88 33308.3 108288.7 0.262 91.45 252.31
cxj USTC 284.98 1015564.7 108523.3 0.600 516.31 53.65
CMM UNet50 69.31 65762.0 12634.7 0.139 97.45 41.17
SDG SynapX.X 121.40 204301.0 16302.7 0.286 194.74 48.06
  • Page 1 of 5
  • 25 of 101 items

Legend

CREMI score
The mean of ADGT and ADF. We are not including the F-Score for now, as our current way of computing it can lead to unfair comparison. We are working on a more robust measure and will update the results accordingly.
FP, FN, and F-Score
The False Positives, False Negatives, and the resulting F-Score in the clefts detection volume. See metrics for details.
ADGT
The average distance of any found cleft voxel to the closest ground truth cleft voxel.
ADF
The average distance of any ground truth cleft voxel to the closest found cleft voxel.

For each value, lower is better (F-Score shown as 1 - F-Score).

Leaderboard Synaptic Partner Identification

Results for the synaptic partner identification category, averaged over all samples.

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Group Submission CREMI score FP FN
PNI asyn_mod 0.423 367.667 262.333
NO2 lr_balan 0.447 175.333 314.000
HCBS Tr66_80K 0.449 223.000 286.667
HCBS Tr66comb 0.451 219.000 292.333
DIVE PTR_V2 0.453 162.667 333.667
IAL PSP_unar 0.461 266.667 281.000
IAL PSP_full 0.464 187.333 310.000
HCBS PrnTrn66 0.465 178.667 322.333
PNI asyn_at0 0.468 293.333 297.000
HCBS Tr66t-01 0.469 182.667 318.667
PNI asyn_at1 0.490 274.333 314.667
PNI asyn_ori 0.493 310.000 302.333
NO2 lr_affin 0.567 118.333 450.000
AnonumoysGroup PrTrn66 0.620 238.000 451.667
  • 14 items

Legend

CREMI score
1 - F-Score of the FP and FN.
FP, FN
The False Positives and False Negatives synaptic partner pairs. See metrics for details.

For each value, lower is better.