Table 1 Accuracy and stability results using different clustering programs, initialization schemes and number of genes/clusters.
From: ParaKMeans: Implementation of a parallelized K-means algorithm suitable for general laboratory use
| Â | Clusters | 5000 genes | 10000 genes | Combined |
|---|---|---|---|---|
Accuracy | Â | Â | Â | Â |
Cluster* | 4 | 0.405 (0.404–0.405) | 0.594 (0.569–0.604) | 0.487 (0.404–0.604) |
PKM-RIA* | 4 | 0.519 (0.453–0.597) | 0.896 (0.896–0.896) | 0.747 (0.453–0.896) |
PKM-RFD* | 4 | 0.519 (0.322–0.519) | 0.770 (0.586–0.896) | 0.553 (0.322–0.896) |
PKM-BKM* | 4 | 0.489 (0.489–0.489) | 0.770 (0.770–0.770) | 0.629 (0.629–0.629) |
Cluster* | 20 | 0.163 (0.124–0.183) | 0.256 (0.196–0.297) | 0.190 (0.124–0.297) |
PKM-RIA* | 20 | 0.231 (0.211–0.461) | 0.216 (0.208–0.233) | 0.227 (0.208–0.461) |
PKM-RFD* | 20 | 0.189 (0.178–0.226) | 0.210 (0.202–0.252) | 0.202 (0.178–0.252) |
PKM-BKM* | 20 | 0.400 (0.400–0.400 | 0.691 (0.691–0.691) | 0.545 (0.400–0.691) |
Stability | Â | Â | Â | Â |
Cluster* | 4 | 0.439 (0.436–0.442) | 0.797 (0.783–0.812) | 0.618 (0.436–0.812) |
PKM-RIA* | 4 | 0.514 (0.435–1.00) | 1.00 (1.00–1.00) | 1.00 (0.435–1.00) |
PKM-RFD* | 4 | 0.569 (0.483–1.00) | 0.769 (0.586–0.770) | 0.711 (0.483–1.00) |
PKM-BKM* | 4 | 1.00 (1.00–1.00) | 1.00 (1.00–1.00) | 1.00 (1.00–1.00) |
Cluster* | 20 | 0.347 (0.321–0.393) | 0.492 (0.418–0.907) | 0.405 (0.321–0.907) |
PKM-RIA* | 20 | 0.738 (0.444–0.888) | 0.904 (0.682–0.994) | 0.788 (0.444–0.994) |
PKM-RFD* | 20 | 0.594 (0.548–0.643) | 0.652 (0.573–0.668) | 0.634 (0.548–0.668) |
PKM-BKM* | 20 | 1.00 (1.00–1.00) | 1.00 (1.00–1.00) | 1.00 (1.00–1.00) |