To evaluate the ability of MACS2 to detect peaks with different numbers of input cells, we performed peak calling using the CD14+ monocyte cell population in the PBMC multiome dataset. We compared peak calls obtained using 2,850 CD14+ monocytes to random downsamplings of the cell population in steps of 50 cells down to 50 cells in total. For each set of peaks identified using the downsampled set of cells, we counted the total number of peaks identified that overlapped a peak in the peak set obtained using 2,850 cells.
