Comparative RNA-seq Analysis in the Unsequenced Axolotl: The Oncogene Burst Highlights Early Gene Expression in the Blastema
Figure 4
Bootstrapping of the sample clusters from Figure 3.
To assess the uncertainty in hierarchical cluster analysis over samples, bootstrap resampling (10,000 iterations) was applied via the R package Pvclust [26]. The uncentered Pearson correlation is used as the distance metric with average linkage. The numbers above each edge show the probability of nodes below that edge occurring as a cluster in resampled trees, via ordinary bootstrap resampling (BP, green) or multiscale bootstrap resampling (AU, red). See Materials and Methods for details on bootstrapping.