Frank-Xuran
commented
1 year ago This tool seems to be incompatible with the latest version of ggplot2. The issue was resolved when I downgraded ggplot2 from the latest version 3.4.2 to version 3.4.1. Thank you for your amazing work.
jjDotPlot(sce,id = 'cell_type',x.text.angle=0,x.text.hjust=0.5, gene ="PTPRC")
Error in eval(
_inherit, env, NULL) : object 'RangeContinuous' not found.sessionInfo()
Matrix products: default BLAS: /usr/lib/x86_64-linux-gnu/blas/libblas.so.3.9.0 LAPACK: /usr/lib/x86_64-linux-gnu/lapack/liblapack.so.3.9.0
locale: [1] LC_CTYPE=en_US.UTF-8 LC_NUMERIC=C LC_TIME=en_US.UTF-8
[4] 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
[10] LC_TELEPHONE=C LC_MEASUREMENT=en_US.UTF-8 LC_IDENTIFICATION=C
attached base packages: [1] stats graphics grDevices utils datasets methods base
other attached packages: [1] scRNAtoolVis_0.0.6 forcats_0.5.1 stringr_1.5.0 purrr_1.0.1
[5] readr_2.1.2 tidyr_1.3.0 tibble_3.2.1 tidyverse_1.3.2
[9] ggsci_3.0.0 glmGamPoi_1.8.0 future_1.27.0 sctransform_0.3.5 [13] harmony_0.1.0 Rcpp_1.0.10 ggplot2_3.4.2 dplyr_1.1.2
[17] patchwork_1.1.2 SeuratData_0.2.2 SeuratObject_4.1.3 Seurat_4.2.1
loaded via a namespace (and not attached): [1] readxl_1.4.0 backports_1.4.1 plyr_1.8.8
[4] igraph_1.5.0 lazyeval_0.2.2 sp_1.5-0
[7] splines_4.2.1 listenv_0.8.0 scattermore_0.8
[10] usethis_2.1.6 GenomeInfoDb_1.34.9 digest_0.6.32
[13] htmltools_0.5.5 fansi_1.0.4 memoise_2.0.1
[16] magrittr_2.0.3 tensor_1.5 googlesheets4_1.0.0
[19] cluster_2.1.3 ROCR_1.0-11 remotes_2.4.2
[22] tzdb_0.3.0 globals_0.15.1 modelr_0.1.8
[25] matrixStats_0.62.0 spatstat.sparse_3.0-0 prettyunits_1.1.1
[28] ggh4x_0.2.3 colorspace_2.1-0 rvest_1.0.2
[31] rappdirs_0.3.3 ggrepel_0.9.1 haven_2.5.0
[34] callr_3.7.1 crayon_1.5.2 RCurl_1.98-1.12
[37] jsonlite_1.8.7 progressr_0.10.1 spatstat.data_3.0-0
[40] survival_3.2-13 zoo_1.8-10 glue_1.6.2
[43] polyclip_1.10-4 gtable_0.3.3 gargle_1.2.0
[46] zlibbioc_1.44.0 XVector_0.38.0 leiden_0.4.2
[49] DelayedArray_0.22.0 pkgbuild_1.3.1 future.apply_1.9.0
[52] BiocGenerics_0.44.0 abind_1.4-5 scales_1.2.1
[55] DBI_1.1.3 spatstat.random_3.0-1 miniUI_0.1.1.1
[58] viridisLite_0.4.2 xtable_1.8-4 reticulate_1.25
[61] stats4_4.2.1 profvis_0.3.7 htmlwidgets_1.5.4
[64] httr_1.4.6 RColorBrewer_1.1-3 ellipsis_0.3.2
[67] ica_1.0-3 urlchecker_1.0.1 pkgconfig_2.0.3
[70] farver_2.1.1 uwot_0.1.14 dbplyr_2.2.1
[73] deldir_1.0-6 utf8_1.2.3 tidyselect_1.2.0
[76] rlang_1.1.1 reshape2_1.4.4 later_1.3.0
[79] cachem_1.0.8 munsell_0.5.0 cellranger_1.1.0
[82] tools_4.2.1 cli_3.6.1 generics_0.1.3
[85] devtools_2.4.5 broom_1.0.0 ggridges_0.5.3
[88] ggdendro_0.1.23 fastmap_1.1.1 goftest_1.2-3
[91] processx_3.7.0 fs_1.6.2 fitdistrplus_1.1-8
[94] RANN_2.6.1 pbapply_1.5-0 nlme_3.1-157
[97] mime_0.12 xml2_1.3.3 compiler_4.2.1
[100] rstudioapi_0.13 curl_5.0.1 plotly_4.10.0
[103] png_0.1-8 spatstat.utils_3.0-1 reprex_2.0.1
[106] stringi_1.7.12 ps_1.7.1 lattice_0.20-45
[109] Matrix_1.5-1 vctrs_0.6.3 pillar_1.9.0
[112] lifecycle_1.0.3 spatstat.geom_3.0-3 lmtest_0.9-40
[115] RcppAnnoy_0.0.19 data.table_1.14.8 cowplot_1.1.1
[118] bitops_1.0-7 irlba_2.3.5 httpuv_1.6.5
[121] GenomicRanges_1.48.0 R6_2.5.1 promises_1.2.0.1
[124] KernSmooth_2.23-20 gridExtra_2.3 IRanges_2.32.0
[127] parallelly_1.32.1 sessioninfo_1.2.2 codetools_0.2-18
[130] pkgload_1.3.0 MASS_7.3-58 assertthat_0.2.1
[133] SummarizedExperiment_1.26.1 withr_2.5.0 S4Vectors_0.36.2
[136] GenomeInfoDbData_1.2.9 parallel_4.2.1 hms_1.1.1
[139] grid_4.2.1 MatrixGenerics_1.8.1 googledrive_2.0.0
[142] Rtsne_0.16 spatstat.explore_3.0-3 lubridate_1.8.0
[145] Biobase_2.58.0 shiny_1.7.4