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Description
Issue Description
Hello,
During the "Introduction to Integration" tutorial, at the step:
p1 <- CellScatter(aggregate_ifnb, "CD14 Mono_CTRL", "CD14 Mono_STIM", highlight = genes.to.label)
I received the following message, which informed me to report it here. There you have it :)
The <scale> argument of guides() cannot be FALSE. Use "none" instead as of ggplot2 3.3.4.
ℹ The deprecated feature was likely used in the Seurat package.
Please report the issue at https://github.com/satijalab/seurat/issues.
This warning is displayed once every 8 hours.
Call lifecycle::last_lifecycle_warnings() to see where this warning was generated.
Reproducing Code Example
The `<scale>` argument of `guides()` cannot be `FALSE`. Use "none" instead as of ggplot2 3.3.4.
ℹ The deprecated feature was likely used in the Seurat package.
Please report the issue at <https://github.com/satijalab/seurat/issues>.
This warning is displayed once every 8 hours.
Call `lifecycle::last_lifecycle_warnings()` to see where this warning was generated.Error Message
Additional Comments
No response
Session Info
R version 4.4.3 (2025-02-28 ucrt)
Platform: x86_64-w64-mingw32/x64
Running under: Windows 11 x64 (build 26100)
Matrix products: default
locale:
[1] LC_COLLATE=English_United States.utf8 LC_CTYPE=English_United States.utf8
[3] LC_MONETARY=English_United States.utf8 LC_NUMERIC=C
[5] LC_TIME=English_United States.utf8
time zone: America/Chicago
tzcode source: internal
attached base packages:
[1] stats graphics grDevices utils datasets methods base
other attached packages:
[1] cowplot_1.1.3 ggplot2_3.5.1 patchwork_1.3.0 ifnb.SeuratData_3.1.0
[5] SeuratData_0.2.2.9001 Seurat_5.2.1 SeuratObject_5.0.2 sp_2.2-0
loaded via a namespace (and not attached):
[1] deldir_2.0-4 pbapply_1.7-2 gridExtra_2.3 rlang_1.1.4
[5] magrittr_2.0.3 RcppAnnoy_0.0.22 matrixStats_1.4.1 ggridges_0.5.6
[9] compiler_4.4.3 spatstat.geom_3.3-4 png_0.1-8 vctrs_0.6.5
[13] reshape2_1.4.4 stringr_1.5.1 crayon_1.5.3 pkgconfig_2.0.3
[17] fastmap_1.2.0 labeling_0.4.3 promises_1.3.2 purrr_1.0.2
[21] jsonlite_1.8.9 goftest_1.2-3 later_1.3.2 spatstat.utils_3.1-3
[25] irlba_2.3.5.1 parallel_4.4.3 cluster_2.1.8 R6_2.6.1
[29] ica_1.0-3 stringi_1.8.4 RColorBrewer_1.1-3 spatstat.data_3.1-6
[33] reticulate_1.40.0 parallelly_1.42.0 spatstat.univar_3.1-1 lmtest_0.9-40
[37] scattermore_1.2 Rcpp_1.0.13-1 tensor_1.5 future.apply_1.11.3
[41] zoo_1.8-12 sctransform_0.4.1 httpuv_1.6.15 Matrix_1.7-2
[45] splines_4.4.3 igraph_2.1.1 tidyselect_1.2.1 rstudioapi_0.17.1
[49] abind_1.4-8 spatstat.random_3.3-2 codetools_0.2-20 miniUI_0.1.1.1
[53] spatstat.explore_3.3-3 listenv_0.9.1 lattice_0.22-6 tibble_3.2.1
[57] plyr_1.8.9 withr_3.0.2 shiny_1.10.0 ROCR_1.0-11
[61] Rtsne_0.17 future_1.34.0 fastDummies_1.7.5 survival_3.8-3
[65] polyclip_1.10-7 fitdistrplus_1.2-2 pillar_1.10.1 KernSmooth_2.23-26
[69] plotly_4.10.4 generics_0.1.3 RcppHNSW_0.6.0 munsell_0.5.1
[73] scales_1.3.0 globals_0.16.3 xtable_1.8-4 glue_1.8.0
[77] lazyeval_0.2.2 tools_4.4.3 data.table_1.16.2 RSpectra_0.16-2
[81] RANN_2.6.2 dotCall64_1.2 grid_4.4.3 tidyr_1.3.1
[85] colorspace_2.1-1 nlme_3.1-167 cli_3.6.3 rappdirs_0.3.3
[89] spatstat.sparse_3.1-0 spam_2.11-1 viridisLite_0.4.2 dplyr_1.1.4
[93] uwot_0.2.2 gtable_0.3.6 digest_0.6.37 progressr_0.15.1
[97] ggrepel_0.9.6 htmlwidgets_1.6.4 farver_2.1.2 htmltools_0.5.8.1
[101] lifecycle_1.0.4 httr_1.4.7 mime_0.12 MASS_7.3-64