I have a question about ComputeMatrix and plotProfile from deeptools. I have a compute matrix output for 5 samples and I'd like to generate a signal plot (only one line), that represents average value (rowMeans for each region) across all samples but I couldn't find it in the plotProfile functions.
What I got was an average plot for each samples on one single plot which was not what I wanted. here is my code:
plotProfile --matrixFile input.matrix.gz --outFileName Average.plot.pdf --dpi 300 --averageType mean --colors orange --plotTitle 'Ave plot'
Could you please help me out with this issue? I tried to manipulate the output in R but the matrix is huge and my computer cannot handle it.
Thank you, AR