sessionInfo # R version 4.4.1 (2024-06-14) # Platform: x86_64-pc-linux-gnu # Running under: Ubuntu 20.04.6 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=C.UTF-8 LC_NUMERIC=C LC_TIME=C.UTF-8 # [4] LC_COLLATE=C.UTF-8 LC_MONETARY=C.UTF-8 LC_MESSAGES=C.UTF-8 # [7] LC_PAPER=C.UTF-8 LC_NAME=C LC_ADDRESS=C # [10] LC_TELEPHONE=C LC_MEASUREMENT=C.UTF-8 LC_IDENTIFICATION=C # # time zone: Asia/Shanghai # tzcode source: system (glibc) # # attached base packages: # [1] grid stats4 stats graphics grDevices utils datasets # [8] methods base # # other attached packages: # [1] dendextend_1.17.1 pheatmap_1.0.12 # [3] ggtree_3.12.0 aplot_0.2.3 # [5] ggnewscale_0.5.0 gghalves_0.1.4 # [7] ggpirate_0.1.2 scRNAtoolVis_0.1.0 # [9] plot1cell_0.0.0.9000 wordcloud_2.6 # [11] rlang_1.1.4 cowplot_1.1.3 # [13] Matrix_1.7-0 data.table_1.16.0 # [15] ComplexUpset_1.3.3 ggbeeswarm_0.7.2 # [17] RColorBrewer_1.1-3 progress_1.2.3 # [19] scales_1.3.0 MASS_7.3-61 # [21] ggh4x_0.2.8 circlize_0.4.16 # [23] loomR_0.2.1.9000 hdf5r_1.3.11 # [25] R6_2.5.1 DoubletFinder_2.0.4 # [27] ComplexHeatmap_2.20.0 simplifyEnrichment_1.14.1 # [29] GEOquery_2.72.0 EnsDb.Hsapiens.v86_2.99.0 # [31] ensembldb_2.28.1 AnnotationFilter_1.28.0 # [33] GenomicFeatures_1.56.0 XML_3.99-0.17 # [35] biomaRt_2.60.1 devtools_2.4.5 # [37] usethis_3.0.0 plotly_4.10.4 # [39] scatterplot3d_0.3-44 gg3D_0.0.0.9000 # [41] ggrepel_0.9.5 ggthemes_5.1.0 # [43] ggpubr_0.6.0 ggsignif_0.6.4 # [45] reshape2_1.4.4 ggsci_3.2.0 # [47] plotrix_3.8-4 enrichplot_1.24.2 # [49] org.Hs.eg.db_3.19.1 org.Mm.eg.db_3.19.1 # [51] AnnotationDbi_1.66.0 clusterProfiler_4.12.6 # [53] rvcheck_0.2.1 scater_1.32.1 # [55] scuttle_1.14.0 SingleCellExperiment_1.26.0 # [57] textshape_1.7.5 alabaster.schemas_1.4.0 # [59] celldex_1.14.0 SingleR_2.6.0 # [61] SummarizedExperiment_1.34.0 GenomicRanges_1.56.1 # [63] GenomeInfoDb_1.40.1 IRanges_2.38.1 # [65] S4Vectors_0.42.1 MatrixGenerics_1.16.0 # [67] matrixStats_1.3.0 BiocManager_1.30.25 # [69] SeuratData_0.2.2.9001 patchwork_1.2.0 # [71] gridExtra_2.3 future_1.34.0 # [73] lubridate_1.9.3 forcats_1.0.0 # [75] stringr_1.5.1 purrr_1.0.2 # [77] readr_2.1.5 tidyr_1.3.1 # [79] tibble_3.2.1 ggplot2_3.5.1 # [81] tidyverse_2.0.0 dplyr_1.1.4 # [83] multtest_2.60.0 Biobase_2.64.0 # [85] BiocGenerics_0.50.0 mindr_1.3.3 # [87] magrittr_2.0.3 Seurat_5.1.0 # [89] SeuratObject_5.0.2 sp_2.1-4 # # loaded via a namespace (and not attached): # [1] igraph_2.0.3 ica_1.0-3 # [3] zlibbioc_1.50.0 doParallel_1.0.17 # [5] tidyselect_1.2.1 bit_4.0.5 # [7] tm_0.7-14 clue_0.3-65 # [9] lattice_0.22-6 rjson_0.2.22 # [11] blob_1.2.4 urlchecker_1.0.1 # [13] S4Arrays_1.4.1 parallel_4.4.1 # [15] png_0.1-8 cli_3.6.3 # [17] ggplotify_0.1.2 usdata_0.3.1 # [19] ProtGenerics_1.36.0 askpass_1.2.0 # [21] goftest_1.2-3 textshaping_0.4.0 # [23] BiocIO_1.14.0 BiocNeighbors_1.22.0 # [25] uwot_0.2.2 shadowtext_0.1.4 # [27] curl_5.2.2 mime_0.12 # 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