I used the plot_accessibility_profile.py script included with msCentipede to plot the learned profile for one TF. I understand that the x-axis is position relative to the TF motif. However, I am unsure of what the y-axis represents. I initially assumed that it represents the number of digestion events by DNase or Tn5. However, based on the label orders in the plot, the bound profile appears to be the top subplot. There is a peak in signal at the motif in the top plot, which is opposite of what I would expect if the y-axis corresponds to digestion frequency. Is the y-axis the inverse of digestion frequency? Also, am I correct in assuming the top subplot is the bound profile and the bottom subplot is the unbound profile?
Hello,
I used the plot_accessibility_profile.py script included with msCentipede to plot the learned profile for one TF. I understand that the x-axis is position relative to the TF motif. However, I am unsure of what the y-axis represents. I initially assumed that it represents the number of digestion events by DNase or Tn5. However, based on the label orders in the plot, the bound profile appears to be the top subplot. There is a peak in signal at the motif in the top plot, which is opposite of what I would expect if the y-axis corresponds to digestion frequency. Is the y-axis the inverse of digestion frequency? Also, am I correct in assuming the top subplot is the bound profile and the bottom subplot is the unbound profile?
Thanks,
Kevin