Does anyone know what the units are of the y-axis in profile plots made by plotProfile and plotHeatmap?
Say I used bamCompare to create a bigwig with units of log2 fold change, computeMatrix to make a matrix file, and then plotProfile or plotHeatmap. Is the y-axis of the profile plot the mean log2 fold change? median log2 fold change? It seems to be an average of each position across all features in that cluster.