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License: Other
Extended ComplexHeatmap
License: Other
This package looks like exactly what I need but I was not able to reproduce the example. Thanks for any help you can give!
> set.seed(123)
> nr1 <- 4
> nr2 <- 8
> nr3 <- 6
> nr <- nr1 + nr2 + nr3
> nc1 <- 6
> nc2 <- 8
> nc3 <- 10
> nc <- nc1 + nc2 + nc3
> mat <- cbind(
+ rbind(
+ matrix(rnorm(nr1 * nc1, mean = 1, sd = 0.5), nrow = nr1),
+ matrix(rnorm(nr2 * nc1, mean = 0, sd = 0.5), nrow = nr2),
+ matrix(rnorm(nr3 * nc1, mean = 0, sd = 0.5), nrow = nr3)
+ ),
+ rbind(
+ matrix(rnorm(nr1 * nc2, mean = 0, sd = 0.5), nrow = nr1),
+ matrix(rnorm(nr2 * nc2, mean = 1, sd = 0.5), nrow = nr2),
+ matrix(rnorm(nr3 * nc2, mean = 0, sd = 0.5), nrow = nr3)
+ ),
+ rbind(
+ matrix(rnorm(nr1 * nc3, mean = 0.5, sd = 0.5), nrow = nr1),
+ matrix(rnorm(nr2 * nc3, mean = 0.5, sd = 0.5), nrow = nr2),
+ matrix(rnorm(nr3 * nc3, mean = 1, sd = 0.5), nrow = nr3)
+ )
+ )
> mat <- mat[sample(nr, nr), sample(nc, nc)] # random shuffle rows and columns
> rownames(mat) <- paste0("row", seq_len(nr))
> colnames(mat) <- paste0("column", seq_len(nc))
> small_mat <- mat[1:9, 1:9]
> draw(ggheat(small_mat))
Error in `gtable_trim()` at gtable/R/filter.R:42:3:
! `x` must be a gtable object, not a <zeroGrob/grob/gDesc> object.
Run `rlang::last_trace()` to see where the error occurred.
Is there a way to make heatmaps drawn with these objects compatible with patchwork? I tried below but got an error. Thank you
> g1 <- ggheat(small_mat, height = unit(2,'in'), width = unit(2,'in'))
> p1 <- ggplot(mtcars) + geom_point(aes(mpg, disp))
>
> g1 + p1
Error in g1 + p1 : non-numeric argument to binary operator
In addition: Warning message:
Incompatible methods ("+.AdditiveUnit", "+.gg") for "+"
> sessionInfo()
R version 4.4.0 (2024-04-24)
Platform: x86_64-pc-linux-gnu
Running under: Ubuntu 20.04.6 LTS
Matrix products: default
BLAS: /usr/lib/x86_64-linux-gnu/openblas-pthread/libblas.so.3
LAPACK: /usr/lib/x86_64-linux-gnu/openblas-pthread/liblapack.so.3; LAPACK version 3.9.0
locale:
[1] LC_CTYPE=en_US.UTF-8 LC_NUMERIC=C LC_TIME=en_US.UTF-8 LC_COLLATE=en_US.UTF-8 LC_MONETARY=en_US.UTF-8 LC_MESSAGES=en_US.UTF-8
[7] LC_PAPER=en_US.UTF-8 LC_NAME=C LC_ADDRESS=C LC_TELEPHONE=C LC_MEASUREMENT=en_US.UTF-8 LC_IDENTIFICATION=C
time zone: America/Los_Angeles
tzcode source: system (glibc)
attached base packages:
[1] grid stats graphics grDevices datasets utils methods base
other attached packages:
[1] patchwork_1.2.0 dplyr_1.1.4 progress_1.2.3 eheat_0.0.0.9000 ggplot2_3.5.1 ComplexHeatmap_2.15.4
loaded via a namespace (and not attached):
[1] utf8_1.2.4 generics_0.1.3 tidyr_1.3.1 renv_1.0.7 shape_1.4.6.1 hms_1.1.3 digest_0.6.35 magrittr_2.0.3
[9] RColorBrewer_1.1-3 iterators_1.0.14 circlize_0.4.16 foreach_1.5.2 doParallel_1.0.17 GlobalOptions_0.1.2 purrr_1.0.2 fansi_1.0.6
[17] scales_1.3.0 codetools_0.2-19 textshaping_0.4.0 cli_3.6.2 rlang_1.1.4 crayon_1.5.2 munsell_0.5.1 withr_3.0.0
[25] tools_4.4.0 parallel_4.4.0 colorspace_2.1-0 GetoptLong_1.0.5 BiocGenerics_0.50.0 vctrs_0.6.5 R6_2.5.1 png_0.1-8
[33] matrixStats_1.3.0 stats4_4.4.0 lifecycle_1.0.4 S4Vectors_0.42.0 IRanges_2.38.0 clue_0.3-65 ragg_1.3.2 cluster_2.1.6
[41] pkgconfig_2.0.3 pillar_1.9.0 gtable_0.3.5 glue_1.7.0 systemfonts_1.1.0 tibble_3.2.1 tidyselect_1.2.1 rstudioapi_0.16.0
[49] farver_2.1.2 rjson_0.2.21 labeling_0.4.3 Cairo_1.6-2 compiler_4.4.0 prettyunits_1.2.0
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