Table 1. A Complete Analysis Session in PAPST with Timing Information.

Task	Number of mouse clicks	Time
Load peak files of Oct4, Sox2, and Nanog (23986, 16056, 22463 peaks, respectively)	3	3 sec
Assign Oct4 peaks as the base	4	4 sec
Define search criteria by creating a filter	4	4 sec
Search for regions co-localized by the 3 TFs	1	1 sec (the search operation itself took 0.051 sec)
Reformat the search results into an input file	4	4 sec
Load genomic locations of super-enhancers and typical enhancers	2	2 sec
Calculate overlaps for all 20 pairwise comparisons	1	1 sec
Total	19 mouse clicks	19 seconds

PAPST is a very fast and easy to use platform for exploratory research as illustrated by the number of clicks to accomplish a task as well as the time.