Hello,

I am not sure if this question is too silly but I have done a bit of searching and am not sure if I'm in the right direction. I have differential binding data for WT samples male and the same for WT females for two histone markers K27me3 and K4me1. Now, I want to plot the read densities across each chromosome such that one can look at the plot and see the density along the length of the chromosome. From the diffbind table, what column can I use to plot the read density? Can I use the Fold column? Thank you so much for any help or guidance and for reading!

Thank you, Priyanka

In the report returned by dba.report(), the 'Conc' columns shows the mean read concentration across all the samples for each peak. By default, this if the mean of the normalized overlapping reads counts, reported as a log2() value. The next two columns show the mean concentration across the replicates within each sample group (in your case, male or female, eg. Conc_WT_male and Conc_WT_female depending on how you have labelled the groups).