From: Impact of data preprocessing on cell-type clustering based on single-cell RNA-seq data
 | Darmanis | Lake | Yan | Baron | Biase | Leng | Romanov | Deng |
---|---|---|---|---|---|---|---|---|
dynamicTreecut | ||||||||
 sctransform | 0.368 | 0.195 | 0.667 | 0.376 | * | 0.069 | 0.562 | 0.858 |
 log | 0.37 | 0.206 | 0.667 | 0.629 | 1 | 0.101 | 0.51 | 0.858 |
 no | 0.28 | 0.21 | 0.667 | 0.16 | 0.71 | 0.052 | 0.191 | 0.582 |
 z-score | 0.015 | 0.003 | 0.296 | 0 | 0.241 | 0 | 0 | 0.018 |
pcaReduce | ||||||||
 sctransform | 0.457 | 0.292 | 0.818 | 0.425 | * | 0.265 | 0.379 | 0.361 |
 log | 0.46 | 0.29 | 0.779 | 0.415 | 0.388 | 0.258 | 0.364 | 0.409 |
 no | 0.071 | 0.156 | 0.41 | 0.278 | 0.004 | 0.154 | 0.166 | 0.422 |
 z-score | 0.442 | 0.276 | 0.671 | 0.238 | 0.325 | 0.056 | 0.221 | 0.518 |
tSNE + k-means | ||||||||
 sctransform | 0.467 | 0.304 | 0.679 | 0.462 | * | 0.059 | 0.429 | 0.481 |
 log | 0.479 | 0.304 | 0.684 | 0.445 | 0.772 | 0.055 | 0.44 | 0.449 |
 no | 0.43 | 0.276 | 0.618 | 0.311 | 0.76 | 0.126 | 0.29 | 0.435 |
 z-score | 0.034 | 0.01 | 0.351 | 0.03 | 0.002 | 0.015 | 0.098 | 0.156 |
SNN-clip | ||||||||
 sctransform | 0.572 | 0.52 | 0.673 | 0.515 | * | 0.26 | 0.422 | 0.594 |
 log | 0.609 | 0.501 | 0.673 | 0.477 | 0.581 | 0.241 | 0.387 | 0.596 |
 no | 0.077 | 0.249 | 0.722 | 0.326 | 0.476 | 0.252 | 0.279 | 0.576 |
 z-score | 0.643 | 0.498 | 0.744 | 0.395 | 0.216 | 0.277 | 0.228 | 0.483 |
SC3 | ||||||||
 sctransform | 0.795 | 0.556 | 0.658 | 0.537 | * | 0.21 | 0.519 | 0.571 |
 log | 0.785 | 0.554 | 0.674 | 0.56 | 0.87 | 0.22 | 0.511 | 0.575 |
 no | 0.492 | 0.415 | 0.595 | 0.757 | 0.783 | 0.221 | 0.575 | 0.841 |
 z-score | 0.656 | 0.494 | 0.895 | 0.489 | 0.956 | 0.594 | 0.336 | 0.686 |