VISET

Visual Itemized SET diagrams: area-proportional Venn/Euler and UpSet plots that print the member names inside each region, in Python.

📖 Docs & interactive figures: https://mnicolee.github.io/VISET

Venn/Euler diagrams read best for 2 to 3 sets; UpSet takes over when there are more. Below, both are drawn on drug-target sets as static (Matplotlib) figures — every region or bar lists the actual genes. When an intersection is too small to print its members legibly, reach for the interactive (Plotly) versions on the documentation site and hover the region to read them.

Venn / Euler (three drugs)

Static (Matplotlib): proportional ellipses, every gene printed and auto-sized to fit its region.

Code

import os
import matplotlib.pyplot as plt
from matplotlib import font_manager
from viset import load, eunoia_venn
fp = "Font" if os.path.isdir("Font") else "../Font"
for f in font_manager.findSystemFonts(fontpaths=[fp]):
    font_manager.fontManager.addfont(f)
db = "Drug target sample files/" if os.path.isdir("Drug target sample files") else "../Drug target sample files/"
def L(name, fname): return load(db + fname, "Gene names", name)
flx = L("Fluoxetine", "1. FLUOXETINE_sample.csv")
ibu = L("Ibuprofen", "2. IBUPROFEN_sample.csv")
ace = L("Acetaminophen", "3. ACETAMINOPHEN_sample.csv")
eunoia_venn([flx, ibu, ace], colors=["#3a7ca5", "#e08a3c", "#3c8c57"], style="round", title="", figsize=(8.5, 7.5), margin=0.06)

UpSet (four drugs)

Static (Matplotlib): one bar per intersection with its members listed inside, so it keeps working past the three-set limit of a Venn.

Code

import os
import matplotlib.pyplot as plt
from matplotlib import font_manager
from viset import load, upset
fp = "Font" if os.path.isdir("Font") else "../Font"
for f in font_manager.findSystemFonts(fontpaths=[fp]):
    font_manager.fontManager.addfont(f)
db = "Drug target sample files/" if os.path.isdir("Drug target sample files") else "../Drug target sample files/"
def L(name, fname): return load(db + fname, "Gene names", name)
ibu = L("Ibuprofen", "2. IBUPROFEN_sample.csv")
ace = L("Acetaminophen", "3. ACETAMINOPHEN_sample.csv")
dic = L("Diclofenac", "12. DICLOFENAC_sample.csv")
ind = L("Indomethacin", "13. INDOMETHACIN_sample.csv")
upset({"Ibuprofen": ibu, "Acetaminophen": ace, "Diclofenac": dic, "Indomethacin": ind},
      figsize=(13, 7), color_list="Set2", wspace=0.5)

Learn more

Want the reasoning behind all this? See State of current set diagrams for the existing tools and their gaps, and the Introduction to install VISET and run it on your own data. Full-page interactive versions: Venn and UpSet.