Plots of paper Figure 1c

[antgomo]

I want to reproduce the Figure 1 c of the Genome Research paper, basically the ATAC insertions for several different samples. So, must I use the signal or occ files?
The point is , as far as I see, that I have in this bed files the position of the nucleosome dyad, 2bp, so (maybe is a naïve quiestion, sorry) how can I plot the same figure as in Fig 1c with this kind of files?

Thanks in advance

[AliciaSchep]

Figure 1c is the ATAC-seq insertions around nucleosome calls by chemical mapping from Brogaard et al. NucleoATAC (nucleoatac run) should create a ".ins.bedgraph.gz" file. You can also just create that bedgraph file by running pyatac ins.

For getting the chemical mapping calls, you'd have to refer to Brogaard et al paper.