missing overlaps using eulerr
Opened this issue · 3 comments
Not sure whether I am using this tool properly, but here is what I am getting:
list_euler <- c("agc" = 9, "camk" = 17, "cmgc" = 16, "tk" = 16, "tkl" = 23,
"agc&camk" = 1,
"camk$tk" = 1,
"tk&tkl" = 1,
"camk&cmgc&tkl" = 1,
"camk&tk&tkl" = 2,
"agc&camk&tk&tkl" = 1,
"camk&cmgc&tk&tkl" = 3,
"agc&camk&cmgc&tk&tkl" = 1)
fit <- euler(list_euler, shape="ellipse")
fit (zeros deleted)
agc 9 9 0 0.012
camk 17 17 0 0.023
cmgc 16 16 0 0.021
tk 16 16 0 0.021
tkl 23 23 0 0.030
camk$tk 1 0 1 0.011
agc&camk 1 0 1 0.011
camk&cmgc&tkl 1 0 1 0.011
camk&tk&tkl 2 0 2 0.022
agc&camk&tk&tkl 1 0 1 0.011
camk&cmgc&tk&tkl 3 0 3 0.033
agc&camk&cmgc&tk&tkl 1 0 1 0.011
diagError: 0.033
stress: 0.013
The plot generates 5 non-overlapping ellipses. I see from other comments that small numbers are
excluded. If I have made a mistake in entering the input, please let me know. If there is a way to
display overlaps I would be thankful.
Note that the numbers are taken directly from UpSetR.
Regards,
David Covell, Ph.D.
NIH,NCI
If I am to guess, the problem with this example is that the intersections are so small relative to the non-intersecting parts, so it becomes very difficult to find a configuration with these intersections but without the non-existing ones.
I've looked into this a bit more and there actually seems to be an inconsistency here, because the fit is often worse using ellipses than it is with circles, which shouldn't happen. I'll reopen this issue and see if I can figure out what's going on.