Changing label font size in emapplot and cnetplot #786
Description
Hello @GuangchuangYu, I have a question regarding figure customisation.
I cannot find how to change font size of labels for emapplots and cnetplots in their documentation. I knew how to change this in older versions by modifying the cex_label_category parameter, but it is now gone and I cannot find a new argument that does the same thing.
I was also a bit confused for a bit because of the old cex_label_category argument and the new size_category arguments, which do radically different things but their definitions in documentation are very similar. I now understand how they differ, but I believe they could benefit from some clarification in function documentation.
I am also unable to understand what the label_format argument does in emapplot function. I have built a minimal script based on your tutorials to try to understand it. My script is as follows:
library(clusterProfiler)
library(enrichplot)
data(gcSample)
xx <- compareCluster(gcSample, fun="enrichKEGG",
organism="hsa", pvalueCutoff=0.05)
xx <- pairwise_termsim(xx)
p1 <- emapplot(xx, label_format = 1)
p2 <- emapplot(xx, label_format = 600)
pdf("test_emapplot.pdf")
cowplot::plot_grid(p1, p2, ncol=2, labels=LETTERS[1:2])
dev.off()
This is what I get as a result:
I thought it would affect the category labels in any way. Am I not using it correctly?
To sum up, my issue is that I think the documentation for emapplots and cnetplots could be clearer, and I also would like to know how to manipulate the label font size to produce quality figures. Thank you in advance.
SessionInfo:
R version 4.5.1 (2025-06-13)
Platform: x86_64-pc-linux-gnu
Running under: SUSE Linux Enterprise Server 15 SP4
Matrix products: default
BLAS/LAPACK: /usr/lib64/openblas-pthreads/libopenblas.so.0; LAPACK version 3.9.0
locale:
[1] LC_CTYPE=en_US.UTF-8 LC_NUMERIC=C
[3] LC_TIME=en_US.UTF-8 LC_COLLATE=en_US.UTF-8
[5] LC_MONETARY=en_US.UTF-8 LC_MESSAGES=en_US.UTF-8
[7] LC_PAPER=en_US.UTF-8 LC_NAME=C
[9] LC_ADDRESS=C LC_TELEPHONE=C
[11] LC_MEASUREMENT=en_US.UTF-8 LC_IDENTIFICATION=C
time zone: Europe/Madrid
tzcode source: system (glibc)
attached base packages:
[1] stats graphics grDevices utils datasets methods base
other attached packages:
[1] enrichplot_1.28.4 clusterProfiler_4.16.0
loaded via a namespace (and not attached):
[1] tidyselect_1.2.1 dplyr_1.1.4 farver_2.1.2
[4] blob_1.2.4 R.utils_2.13.0 Biostrings_2.76.0
[7] fastmap_1.2.0 lazyeval_0.2.2 tweenr_2.0.3
[10] digest_0.6.37 lifecycle_1.0.4 KEGGREST_1.48.1
[13] tidytree_0.4.6 RSQLite_2.4.3 magrittr_2.0.3
[16] compiler_4.5.1 rlang_1.1.6 tools_4.5.1
[19] igraph_2.1.4 data.table_1.17.8 ggtangle_0.0.7
[22] labeling_0.4.3 bit_4.6.0 gson_0.1.0
[25] plyr_1.8.9 RColorBrewer_1.1-3 aplot_0.2.8
[28] BiocParallel_1.42.1 withr_3.0.2 purrr_1.1.0
[31] BiocGenerics_0.54.0 R.oo_1.27.1 polyclip_1.10-7
[34] grid_4.5.1 stats4_4.5.1 GOSemSim_2.34.0
[37] GO.db_3.21.0 ggplot2_3.5.2 MASS_7.3-65
[40] scales_1.4.0 cli_3.6.5 crayon_1.5.3
[43] treeio_1.32.0 generics_0.1.4 ggtree_3.16.3
[46] httr_1.4.7 reshape2_1.4.4 ggforce_0.5.0
[49] DBI_1.2.3 qvalue_2.40.0 ape_5.8-1
[52] cachem_1.1.0 DOSE_4.2.0 stringr_1.5.1
[55] splines_4.5.1 parallel_4.5.1 ggplotify_0.1.2
[58] AnnotationDbi_1.70.0 XVector_0.48.0 yulab.utils_0.2.1
[61] vctrs_0.6.5 Matrix_1.7-4 jsonlite_2.0.0
[64] gridGraphics_0.5-1 IRanges_2.42.0 patchwork_1.3.2
[67] S4Vectors_0.46.0 bit64_4.6.0-1 ggrepel_0.9.6
[70] tidyr_1.3.1 glue_1.8.0 codetools_0.2-20
[73] cowplot_1.2.0 stringi_1.8.7 gtable_0.3.6
[76] GenomeInfoDb_1.44.2 UCSC.utils_1.4.0 tibble_3.3.0
[79] pillar_1.11.0 rappdirs_0.3.3 fgsea_1.34.2
[82] GenomeInfoDbData_1.2.14 R6_2.6.1 lattice_0.22-7
[85] Biobase_2.68.0 R.methodsS3_1.8.2 png_0.1-8
[88] memoise_2.0.1 ggfun_0.2.0 Rcpp_1.1.0
[91] fastmatch_1.1-6 scatterpie_0.2.5 nlme_3.1-168
[94] fs_1.6.6 pkgconfig_2.0.3