UpSet plot

## Usage

```
plotUpset(object, ...)
# S4 method for DFrame
plotUpset(object, ...)
# S4 method for data.frame
plotUpset(object, ...)
# S4 method for list
plotUpset(object, ...)
# S4 method for matrix
plotUpset(
object,
minSize = 0L,
maxSize = Inf,
nIntersections = 40L,
orderBySize = c(intersections = TRUE, sets = TRUE),
labels = list(title = NULL, subtitle = NULL)
)
```

## Arguments

- object
Object.

- ...
Additional arguments.

- minSize, maxSize
Non-negative

`integer(1)`

or`Inf`

. Minimal/maximal number of observations in an intersection for it to be included. Defaults to all observations. Note that`maxSize`

must be greater than`minSize`

.- nIntersections
`integer(1)`

or`Inf`

. Maximum number of intersections to plot. Set`Inf`

to plot all intersections.- orderBySize
`logical`

. Whether to order main bar plot and/or intersection matrix by set size.`"intersection"`

: refers to main intersection bar plot.`"sets"`

: refers to set intersection matrix, shown as connected dots. When`TRUE`

, orders by the set size (see plot to the left).

Can pass in

`TRUE`

/`FALSE`

boolean flag and both`"intersection"`

and`"sets"`

settings will inherit.- labels
`list`

. ggplot2 labels. See`ggplot2::labs()`

for details.

## Details

S4 wrapper for `ComplexUpset::upset()`

with improved default aesthetics.

## Examples

```
## list ====
list <- list(
"aaa" = c("a", "b", "c", "d", "e", "f"),
"bbb" = c("b", "c", "d", "e", "f", "g"),
"ccc" = c("c", "d", "e", "f", "g", "h"),
"ddd" = c("d", "e", "f", "g", "h", "i")
)
print(list)
#> $aaa
#> [1] "a" "b" "c" "d" "e" "f"
#>
#> $bbb
#> [1] "b" "c" "d" "e" "f" "g"
#>
#> $ccc
#> [1] "c" "d" "e" "f" "g" "h"
#>
#> $ddd
#> [1] "d" "e" "f" "g" "h" "i"
#>
plotUpset(list)
## matrix ====
mat <- AcidBase::intersectionMatrix(list)
print(mat)
#> aaa bbb ccc ddd
#> a TRUE FALSE FALSE FALSE
#> b TRUE TRUE FALSE FALSE
#> c TRUE TRUE TRUE FALSE
#> d TRUE TRUE TRUE TRUE
#> e TRUE TRUE TRUE TRUE
#> f TRUE TRUE TRUE TRUE
#> g FALSE TRUE TRUE TRUE
#> h FALSE FALSE TRUE TRUE
#> i FALSE FALSE FALSE TRUE
plotUpset(mat)
```