add heatmap to a new track

add heatmap to a new track

add_heatmap_track(gr, mat, fill, border = NA, track = current_track() + 1, ...)

Arguments

gr

genomic regions, it can be a data frame or a GRanges object

mat

matrix in which rows correspond to intervals in gr

fill

a color mapping function which maps values to colors. Users can consider colorRamp2 to generate a color mapping function.

border

border of the grids in heatmap

track

which track the graphics will be added to. By default it is the next track. The value should only be a scalar.

...

other arguments passed to add_track

Value

No value is returned.

Author

Zuguang Gu <z.gu@dkfz.de>

Examples

require(circlize)
#> Loading required package: circlize
#> ========================================
#> circlize version 0.4.15
#> CRAN page: https://cran.r-project.org/package=circlize
#> Github page: https://github.com/jokergoo/circlize
#> Documentation: https://jokergoo.github.io/circlize_book/book/
#> 
#> If you use it in published research, please cite:
#> Gu, Z. circlize implements and enhances circular visualization
#>   in R. Bioinformatics 2014.
#> 
#> This message can be suppressed by:
#>   suppressPackageStartupMessages(library(circlize))
#> ========================================
bed = generateRandomBed(200)
col_fun = colorRamp2(c(-1, 0, 1), c("green", "black", "red"))
gtrellis_layout(nrow = 3, byrow = FALSE, track_axis = FALSE)
mat = matrix(rnorm(nrow(bed)*4), ncol = 4)
add_heatmap_track(bed, mat, fill = col_fun)