sessionInfo # R version 4.4.2 (2024-10-31) # 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=en_US.UTF-8 LC_NUMERIC=C # [3] LC_TIME=en_US.UTF-8 LC_COLLATE=en_US.UTF-8 # [5] LC_MONETARY=en_US.UTF-8 LC_MESSAGES=en_US.UTF-8 # [7] LC_PAPER=en_US.UTF-8 LC_NAME=C # [9] LC_ADDRESS=C LC_TELEPHONE=C # [11] LC_MEASUREMENT=en_US.UTF-8 LC_IDENTIFICATION=C # # time zone: Asia/Shanghai # tzcode source: system (glibc) # # attached base packages: # [1] stats4 parallel grid stats graphics grDevices utils # [8] datasets methods base # # other attached packages: # [1] patchwork_1.3.0 tidygraph_1.2.2 # [3] data.table_1.16.4 glue_1.8.0 # [5] numbat_1.4.2 Matrix_1.7-1 # [7] fgsea_1.24.0 ggrepel_0.9.6 # [9] ggtree_3.6.2 ape_5.8-1 # [11] tidytree_0.4.1 Rtsne_0.17 # [13] igraph_2.0.1.1 scran_1.26.0 # [15] scuttle_1.8.0 SingleCellExperiment_1.20.0 # [17] SummarizedExperiment_1.28.0 Biobase_2.66.0 # [19] GenomicRanges_1.50.1 GenomeInfoDb_1.42.3 # [21] IRanges_2.32.0 S4Vectors_0.36.0 # [23] BiocGenerics_0.52.0 MatrixGenerics_1.18.1 # [25] matrixStats_1.5.0 yaGST_2017.08.25 # [27] doParallel_1.0.17 iterators_1.0.14 # [29] foreach_1.5.2 SCEVAN_1.0.3 # [31] copykat_1.1.0 devtools_2.4.5 # [33] usethis_2.1.6 ggsignif_0.6.4 # [35] AnnoProbe_0.1.7 RColorBrewer_1.1-3 # [37] circlize_0.4.16 ComplexHeatmap_2.14.0 # [39] forcats_1.0.0 stringr_1.5.1 # [41] dplyr_1.1.4 purrr_1.0.2 # [43] readr_2.1.5 tidyr_1.3.1 # [45] tibble_3.2.1 ggplot2_3.5.1 # [47] tidyverse_1.3.2 Seurat_5.0.3 # [49] SeuratObject_5.0.1 sp_2.1-4 # [51] infercnv_1.14.2 # # loaded via a namespace (and not attached): # [1] ica_1.0-3 plotly_4.10.1 # [3] zlibbioc_1.52.0 tidyselect_1.2.1 # [5] rvest_1.0.3 clue_0.3-66 # [7] lattice_0.22-6 rjson_0.2.23 # [9] urlchecker_1.0.1 png_0.1-8 # [11] cli_3.6.3 ggplotify_0.1.0 # [13] usdata_0.3.1 goftest_1.2-3 # [15] gargle_1.2.1 textshaping_1.0.1 # [17] kernlab_0.9-33 bluster_1.8.0 # [19] BiocNeighbors_2.0.1 uwot_0.1.14 # [21] dendextend_1.19.0 mime_0.12 # [23] evaluate_1.0.3 leiden_0.4.3 # [25] coin_1.4-2 openintro_2.4.0 # [27] stringi_1.8.4 backports_1.5.0 # [29] rjags_4-16 parallelDist_0.2.6 # [31] lubridate_1.9.0 httpuv_1.6.6 # [33] magrittr_2.0.3 splines_4.4.2 # [35] ggraph_2.1.0 logger_0.4.0 # [37] DT_0.26 sctransform_0.4.1 # [39] ggbeeswarm_0.7.2 sessioninfo_1.2.2 # [41] DBI_1.2.3 jquerylib_0.1.4 # [43] withr_3.0.2 systemfonts_1.1.0 # [45] lmtest_0.9-40 formatR_1.14 # [47] htmlwidgets_1.5.4 fs_1.6.5 # [49] segmented_2.1-3 cherryblossom_0.1.0 # [51] labeling_0.4.3 cellranger_1.1.0 # [53] mixtools_1.2.0 reticulate_1.26 # [55] zoo_1.8-12 XVector_0.38.0 # [57] knitr_1.49 hahmmr_1.0.0 # [59] UCSC.utils_1.2.0 airports_0.1.0 # [61] RhpcBLASctl_0.23-42 timechange_0.3.0 # [63] caTools_1.18.3 R.oo_1.27.0 # [65] quantreg_5.94 RSpectra_0.16-2 # [67] irlba_2.3.5.1 ggrastr_1.0.1 # [69] fastDummies_1.7.4 gridGraphics_0.5-1 # [71] ellipsis_0.3.2 lazyeval_0.2.2 # 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