complex-upset

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**Objective** Reduce the file size of the .eps UpSet figure produced in R. **Code** ```R upset( M1_BinaryMatrix, colnames(M1_BinaryMatrix), sort_intersections_by='ratio', intersections='all', min_degree=2, set_sizes=( upset_set_size(position='right') + geom_text(aes(label=paste0(round((..count../nrow(M1_BinaryMatrix))*100), '%')), hjust=1.1, stat='count', color='white') +...

bagcik1lumc

What determines the size of the bars?

3

The size of the bars in the intersection chart do not match their percentage value. For example, the 15% bar > 26% bar. How can you change this? ``` upset(...

bagcik1lumc

How to display intersection size as percentage of total rows? ``` upset( head(M1_BinaryMatrix, 1000), colnames(M1_BinaryMatrix), name="", mode="inclusive_intersection", set_sizes=( upset_set_size(position='right') + geom_text(aes(label=paste0(round((..count../1000)*100), '%')), hjust=1.1, stat='count', color='white') + expand_limits(y=1000) + ylab("") +...

bagcik1lumc

Removed rows due to "missing values" when there are non

2

Why do I get the error message: `Removed 58539 rows containing missing values (`position_stack()`).` When the matrix looks like this:  Hence, there are no missing values.

bagcik1lumc

I have a data set with 10 M rows, is there a way to speed up `upset()`?

bagcik1lumc

How can I change the labels in the UpSet plot?

10

How can I change the labels "Set size" and "Intersection size" into something custom? ``` upset(data = head(file, 100), intersect = colnames(file), name="", width_ratio = 0.125, ylab="",) + labs(title =...

bagcik1lumc

How to change size of points and lines in matrix plot and define the color one time?

2

Hello, 1 I want to know how to change the point size and line size. where is this code in upset? In UpSet package, this can be applied by change...

Sophia409

Plot intersection size on a log scale

10

Is this possible?

samlipworth

Error in plot_them(plot)!

3

**Describe the bug** Hey, I have used Upset Plot before and it produced exactly like in the documentation. But, I tried to do it again and it gave me this...

katekt12

Define one or two groups to be compared to all other groups

1

I am using complexUpset to compare large groups of genes for overlaps. For a specific analysis, it would be great if I could define one or two groups (eg groups...

SebastianHesse