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plot_density can't work #16

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lavon79 opened this issue Feb 12, 2022 · 0 comments
Open

plot_density can't work #16

lavon79 opened this issue Feb 12, 2022 · 0 comments

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@lavon79
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lavon79 commented Feb 12, 2022

data <- SeuratObject::pbmc_small
plot_density(data,"CD3E")
Error in plot_density(data, "CD3E")

sessionInfo()
R version 4.0.0 (2020-04-24)
Platform: x86_64-pc-linux-gnu (64-bit)
Running under: Ubuntu 20.04.1 LTS

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=zh_CN.UTF-8 LC_NUMERIC=C LC_TIME=zh_CN.UTF-8 LC_COLLATE=zh_CN.UTF-8 LC_MONETARY=zh_CN.UTF-8
[6] LC_MESSAGES=zh_CN.UTF-8 LC_PAPER=zh_CN.UTF-8 LC_NAME=C LC_ADDRESS=C LC_TELEPHONE=C
[11] LC_MEASUREMENT=zh_CN.UTF-8 LC_IDENTIFICATION=C

attached base packages:
[1] parallel stats4 stats graphics grDevices utils datasets methods base

other attached packages:
[1] Nebulosa_1.4.0 SeuratObject_4.0.4 Seurat_4.1.0 patchwork_1.1.1 ggplot2_3.3.5
[6] clusterProfiler_4.3.2.991 RcisTarget_1.10.0 DOSE_3.16.0 SummarizedExperiment_1.20.0 Biobase_2.50.0
[11] GenomicRanges_1.42.0 GenomeInfoDb_1.26.7 IRanges_2.24.1 S4Vectors_0.28.1 BiocGenerics_0.36.1
[16] MatrixGenerics_1.2.1 matrixStats_0.61.0

loaded via a namespace (and not attached):
[1] utf8_1.2.2 ks_1.13.3 reticulate_1.24 R.utils_2.11.0 tidyselect_1.1.1
[6] RSQLite_2.2.9 AnnotationDbi_1.52.0 htmlwidgets_1.5.4 grid_4.0.0 BiocParallel_1.24.1
[11] Rtsne_0.15 devtools_2.4.3 scatterpie_0.1.7 munsell_0.5.0 codetools_0.2-16
[16] ica_1.0-2 future_1.23.0 miniUI_0.1.1.1 withr_2.4.3 colorspace_2.0-2
[21] GOSemSim_2.16.1 rstudioapi_0.13 SingleCellExperiment_1.12.0 ROCR_1.0-11 tensor_1.5
[26] listenv_0.8.0 labeling_0.4.2 GenomeInfoDbData_1.2.4 polyclip_1.10-0 bit64_4.0.5
[31] farver_2.1.0 rprojroot_2.0.2 downloader_0.4 parallelly_1.30.0 vctrs_0.3.8
[36] generics_0.1.2 R6_2.5.1 graphlayouts_0.8.0 hdf5r_1.3.5 bitops_1.0-7
[41] spatstat.utils_2.3-0 cachem_1.0.6 fgsea_1.16.0 DelayedArray_0.16.3 promises_1.2.0.1
[46] scales_1.1.1 ggraph_2.0.5 enrichplot_1.10.2 gtable_0.3.0 globals_0.14.0
[51] processx_3.5.2 goftest_1.2-3 tidygraph_1.2.0 rlang_1.0.0 splines_4.0.0
[56] lazyeval_0.2.2 spatstat.geom_2.3-1 BiocManager_1.30.16 reshape2_1.4.4 abind_1.4-5
[61] httpuv_1.6.5 SeuratDisk_0.0.0.9019 qvalue_2.22.0 usethis_2.1.5 tools_4.0.0
[66] feather_0.3.5 ellipsis_0.3.2 spatstat.core_2.3-2 RColorBrewer_1.1-2 sessioninfo_1.2.2
[71] ggridges_0.5.3 Rcpp_1.0.8 plyr_1.8.6 zlibbioc_1.36.0 purrr_0.3.4
[76] RCurl_1.98-1.5 ps_1.6.0 prettyunits_1.1.1 rpart_4.1-15 deldir_1.0-6
[81] pbapply_1.5-0 viridis_0.6.2 cowplot_1.1.1 zoo_1.8-9 ggrepel_0.9.1
[86] cluster_2.1.0 fs_1.5.2 magrittr_2.0.2 data.table_1.14.2 scattermore_0.7
[91] DO.db_2.9 lmtest_0.9-39 RANN_2.6.1 mvtnorm_1.1-3 fitdistrplus_1.1-6
[96] pkgload_1.2.4 hms_1.1.1 mime_0.12 xtable_1.8-4 XML_3.99-0.8
[101] mclust_5.4.9 AUCell_1.12.0 gridExtra_2.3 testthat_3.1.2 compiler_4.0.0
[106] tibble_3.1.6 KernSmooth_2.23-16 crayon_1.4.2 shadowtext_0.1.1 R.oo_1.24.0
[111] htmltools_0.5.2 ggfun_0.0.5 mgcv_1.8-31 later_1.3.0 tidyr_1.2.0
[116] DBI_1.1.2 tweenr_1.0.2 MASS_7.3-51.5 Matrix_1.4-0 brio_1.1.3
[121] cli_3.1.1 R.methodsS3_1.8.1 igraph_1.2.11 pkgconfig_2.0.3 plotly_4.10.0
[126] spatstat.sparse_2.1-0 annotate_1.68.0 XVector_0.30.0 yulab.utils_0.0.4 stringr_1.4.0
[131] callr_3.7.0 digest_0.6.29 pracma_2.3.6 sctransform_0.3.3 RcppAnnoy_0.0.19
[136] graph_1.68.0 spatstat.data_2.1-2 leiden_0.3.9 fastmatch_1.1-3 uwot_0.1.11
[141] GSEABase_1.52.1 curl_4.3.2 shiny_1.7.1 lifecycle_1.0.1 nlme_3.1-147
[146] jsonlite_1.7.3 desc_1.4.0 viridisLite_0.4.0 fansi_1.0.2 pillar_1.6.5
[151] lattice_0.20-41 fastmap_1.1.0 httr_1.4.2 pkgbuild_1.3.1 survival_3.1-12
[156] GO.db_3.12.1 remotes_2.4.2 glue_1.6.1 png_0.1-7 bit_4.0.4
[161] ggforce_0.3.3 stringi_1.7.6 blob_1.2.2 memoise_2.0.1 dplyr_1.0.7
[166] irlba_2.3.5 future.apply_1.8.1

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