complex-upset

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input list of genes/SNPs/clonotypes

1

**Objective** how to use the complex-upset when the inputs are columns of genes such as Control Treatment1 Treatment2 IL21 CD200 TNFRSF4 SRGN EGR2 SNX9 NFKBID SIAH2 CFLAR IRF4 LIF NR4A1...

gt7901b

Adding break in y-axis?

2

**Objective** I would like to add a break in the y-axis of my graph as one bar is >150 while the others are

mholtz2

Guides over set sizes - align with the plots

12

**Guides over set sizes - align with the plots** Hi! Thank you for a great package! I am plotting three annotations in addition to the intersection matrix and intersection size....

Julkut

Is there a way to set a ratio (height/width) for the whole plot?

2

**Objective** I filed this in help-request, but this might be a feature-request! The context is that in a shiny app, the upset plot will fill the entire available space, ![Screenshot...

paulimer

Easy/programmatic way to color intersection matrix based on degree

23

**Is your feature request related to a problem? Please describe.** I would like to visualize a large number of intersections. I sorted them using `sort_intersections_by=c('degree', 'cardinality')`. Now I would like...

januz

Attempt to address https://stackoverflow.com/questions/72820148/complexupset-how-can-i-plot-selected-intersections and https://github.com/krassowski/complex-upset/issues/149

krassowski

Bars not plotted when using intersection_ratio for large data

5

**Describe the bug** I have big dataset (1.5M rows) and when using `intersection_ratio` annotation, the bars are not plotted, while the ratio text is shown for some intersections. I was...

oacar

Is there any functionality to exclude few selected intersections from all possible intersections

2

**Is your feature request related to a problem? Please describe.** This is not related to a problem, but a new request related to the `intersect`. Currently, we can now select...

peranti

Memory error when trying to manually sort intersections but not when intersection order is specified with sort_intersections_by

11

I need the intersections sorted in a particular way. This has worked with less intersections, but when I added more I receive a memory error. However when the intersection order...

lrichter53

Adjusting “Intersection size” to display the counts of each group when the bars are filled

6

Hi, I am trying to produce a graph similar to your example 3.2 (["Fill the bars"](https://krassowski.github.io/complex-upset/articles/Examples_R.html#3-2-fill-the-bars)), but also displaying the counts of each colored bar. Some time ago, I managed...

CyrilLagger