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Table 1 Performance comparison of FarSight, NeuroGPS, HeY’s method, GFT and the proposed algorithm in different datasets

From: Large-scale localization of touching somas from 3D images using density-peak clustering

Dataset Type Volume Ground truth Proposed FarSight NeuroGPS HeY’s method GFT
Data 1 2p-fMOST 150 × 150 × 150 788 764/0.92/ 805/0.85/ 767/0.78/ 620/0.70/ 490/0.60/
2 × 2 × 2 μm3 0.95/0.93a 0.83/0.84 0.80/0.79 0.89/0.78 0.97/0.74
Data 2 2p-fMOST 100 × 100 × 100 288 280/0.92/ 268/0.75/ 265/0.84/ 246/0.77/ 231/0.74/
2 × 2 × 2 μm3 0.95/0.93 0.81/0.78 0.92/0.88 0.90/0.83 0.92/0.82
Data 3 2p-fMOST 100 × 100 × 100 25 24/0.96/ 24/0.88/ 24/0.96/ 24/0.96/ 24/0.96/
2 × 2 × 2 μm3   1.00/0.98 0.92/0.90 1.00/0.98 1.00/0.98 1.00/0.98
Data 4 2p-fMOST 100 × 100 × 100 164 170/0.94/ 179/0.76/ 172/0.88/ 165/0.82/ 144/0.73/
2 × 2 × 2 μm3   0.91/0.92 0.70/0.73 0.84/0.86 0.81/0.81 0.83/0.77
Data 5 2p-fMOST 100 × 100 × 100 148 147/0.96/ 173/0.86/ 146/0.94/ 147/0.84/ 135/0.86/
2 × 2 × 2 μm3   0.97/0.96 0.74/0.80 0.95/0.95 0.85/0.85 0.94/0.90
Data 6 SIMb 100 × 100 × 100 496 486/0.95/ 528/0.82/ 407/0.82/ 399/0.79/ 452/0.89/
1 × 1 × 2 μm3   0.97/0.96 0.77/0.80 0.99/0.90 0.99/0.88 0.98/0.93
Data 7 SIM 100 × 100 × 100 93 89/0.96/ 97/0.88/ 84/0.90/ 87/0.90/ 83/0.88/
1 × 1 × 2 μm3   1.00/0.98 0.85/0.86 1.00/0.95 0.97/0.93 0.99/0.93
Data 8 Nissl staining 100 × 100 × 100 695 616/0.85/ 680/0.86/ 551/0.77/ 502/0.66/ 501/0.71/
1 × 1 × 1 μm3 0.95/0.90 0.84/0.85 0.97/0.86 0.91/0.77 0.98/0.82
Data 9 Nissl staining 100 × 100 × 50 287 266/0.90/ 263/0.79/ 216/0.74/ 197/0.67/ 187/0.64/
1 × 1 × 1 μm3 0.97/0.93 0.86/0.82 0.98/0.84 0.97/0.79 0.99/0.78
Mean ± SD /recall 0.93 ± 0.04 0.83 ± 0.05 0.85 ± 0.08 0.79 ± 0.10 0.78 ± 0.12
/precision 0.96 ± 0.03 0.81 ± 0.07 0.94 ± 0.07 0.92 ± 0.07 0.96 ± 0.05
/F 1 0.94 ± 0.03 0.82 ± 0.05 0.89 ± 0.06 0.85 ± 0.07 0.85 ± 0.08
two-side p-value of Mann–Whitney test /recall 0.001** 0.021ns 0.005** 0.008**
compared with the proposed method /precision 0.000** 0.893ns 0.209ns 0.789ns
/F 1 0.000** 0.051ns 0.010** 0.025*
  1. ns not significant
  2. *p ≤ 0.05, ** p ≤ 0.01
  3. aNumber of detected cells/recall/precision/F 1-measure
  4. bStructured illumination microscopy