R version 4.1.3 (2022-03-10) Platform: x86_64-conda-linux-gnu (64-bit) Running under: CentOS Linux 7 (Core) Matrix products: default BLAS/LAPACK: singlecell4/lib/libopenblasp-r0.3.20.so 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] grid stats graphics grDevices utils datasets methods base other attached packages: [1] ggalluvial_0.12.5 stringr_1.5.0 circlize_0.4.15 ComplexHeatmap_2.10.0 [5] RColorBrewer_1.1-3 scales_1.2.0 reshape2_1.4.4 gridExtra_2.3 [9] ggplot2_3.4.2 viridis_0.6.2 viridisLite_0.4.0 dplyr_1.1.2 [13] clusterProfiler_4.7.1.002 sp_1.4-7 SeuratObject_4.1.0 Seurat_4.1.1 loaded via a namespace (and not attached): [1] utf8_1.2.2 reticulate_1.25 tidyselect_1.2.0 RSQLite_2.2.14 [5] AnnotationDbi_1.56.2 htmlwidgets_1.5.4 BiocParallel_1.28.3 Rtsne_0.16 [9] scatterpie_0.1.7 munsell_0.5.0 codetools_0.2-18 ica_1.0-2 [13] future_1.25.0 miniUI_0.1.1.1 withr_2.5.0 spatstat.random_2.2-0 [17] colorspace_2.0-3 GOSemSim_2.24.0 progressr_0.10.0 Biobase_2.54.0 [21] knitr_1.39 rstudioapi_0.13 stats4_4.1.3 ROCR_1.0-11 [25] tensor_1.5 DOSE_3.24.2 listenv_0.8.0 GenomeInfoDbData_1.2.7 [29] polyclip_1.10-0 bit64_4.0.5 farver_2.1.0 downloader_0.4 [33] parallelly_1.31.1 vctrs_0.6.3 treeio_1.18.1 generics_0.1.2 [37] gson_0.1.0 xfun_0.31 R6_2.5.1 doParallel_1.0.17 [41] GenomeInfoDb_1.30.1 clue_0.3-60 graphlayouts_0.8.0 bitops_1.0-7 [45] spatstat.utils_2.3-1 cachem_1.0.6 fgsea_1.20.0 gridGraphics_0.5-1 [49] promises_1.2.0.1 ggraph_2.0.5 enrichplot_1.14.2 rgeos_0.5-9 [53] gtable_0.3.0 globals_0.15.0 goftest_1.2-3 tidygraph_1.2.1 [57] rlang_1.1.1 GlobalOptions_0.1.2 splines_4.1.3 lazyeval_0.2.2 [61] spatstat.geom_2.4-0 yaml_2.3.5 abind_1.4-5 httpuv_1.6.5 [65] qvalue_2.26.0 tools_4.1.3 ggplotify_0.1.0 ellipsis_0.3.2 [69] spatstat.core_2.4-4 BiocGenerics_0.40.0 ggridges_0.5.3 Rcpp_1.0.8.3 [73] plyr_1.8.7 zlibbioc_1.40.0 purrr_1.0.1 RCurl_1.98-1.6 [77] rpart_4.1.16 deldir_1.0-6 GetoptLong_1.0.5 pbapply_1.5-0 [81] cowplot_1.1.1 S4Vectors_0.34.0 zoo_1.8-10 ggrepel_0.9.3 [85] cluster_2.1.3 magrittr_2.0.3 data.table_1.14.2 scattermore_0.8 [89] lmtest_0.9-40 RANN_2.6.1 fitdistrplus_1.1-8 matrixStats_0.62.0 [93] patchwork_1.1.1 mime_0.12 evaluate_0.15 xtable_1.8-4 [97] HDO.db_0.99.1 shape_1.4.6 IRanges_2.28.0 compiler_4.1.3 [101] tibble_3.2.1 KernSmooth_2.23-20 crayon_1.5.1 shadowtext_0.1.2 [105] htmltools_0.5.2 ggfun_0.0.6 mgcv_1.8-40 later_1.3.0 [109] tidyr_1.3.0 aplot_0.1.4 DBI_1.1.2 tweenr_1.0.2 [113] MASS_7.3-57 Matrix_1.5-4.1 cli_3.6.1 parallel_4.1.3 [117] igraph_1.3.1 pkgconfig_2.0.3 plotly_4.10.0 spatstat.sparse_2.1-1 [121] foreach_1.5.2 ggtree_3.2.1 XVector_0.34.0 yulab.utils_0.0.4 [125] digest_0.6.29 sctransform_0.3.3 RcppAnnoy_0.0.19 spatstat.data_2.2-0 [129] Biostrings_2.62.0 rmarkdown_2.14 leiden_0.4.2 fastmatch_1.1-3 [133] tidytree_0.3.9 uwot_0.1.11 shiny_1.7.1 rjson_0.2.21 [137] lifecycle_1.0.3 nlme_3.1-157 jsonlite_1.8.0 fansi_1.0.3 [141] pillar_1.9.0 lattice_0.20-45 KEGGREST_1.34.0 fastmap_1.1.0 [145] httr_1.4.3 survival_3.3-1 GO.db_3.14.0 glue_1.6.2 [149] iterators_1.0.14 png_0.1-7 bit_4.0.4 ggforce_0.3.3 [153] stringi_1.7.6 blob_1.2.3 memoise_2.0.1 irlba_2.3.5 [157] future.apply_1.9.0 ape_5.6-2