I recently got some chromatin profiling data and am trying to compare them using deeptools 3.5 mutliBamSummary followed by plotCorrelation
The code I am running is:
multiBamSummary bins --bamfiles *sorted.bam --binSize 10000 -o multiBamSummary.npz plotCorrelation --corData multiBamSummary.npz --corMethod pearson --whatToPlot heatmap --skipZeros -o pearson_plot.png
My problem is, when I run this, the resulting plot is a heat map, where almost everything has a value between 0.9 and 1. I'm hoping the error is in my code and not my data. Does anyone have any suggestions?