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session_info.txt
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R version 4.3.3 (2024-02-29)
Platform: aarch64-apple-darwin20 (64-bit)
Running under: macOS Sonoma 14.5
Matrix products: default
BLAS: /System/Library/Frameworks/Accelerate.framework/Versions/A/Frameworks/vecLib.framework/Versions/A/libBLAS.dylib
LAPACK: /Library/Frameworks/R.framework/Versions/4.3-arm64/Resources/lib/libRlapack.dylib; LAPACK version 3.11.0
locale:
[1] en_US.UTF-8/en_US.UTF-8/en_US.UTF-8/C/en_US.UTF-8/en_US.UTF-8
time zone: Australia/Sydney
tzcode source: internal
attached base packages:
[1] grid stats4 stats graphics grDevices utils datasets methods
[9] base
other attached packages:
[1] patchwork_1.2.0 ggforce_0.4.2 knitr_1.45
[4] GeoMxWorkflows_1.8.0 GeomxTools_3.6.2 NanoStringNCTools_1.10.1
[7] readxl_1.4.3 DESeq2_1.42.1 RColorBrewer_1.1-3
[10] circlize_0.4.16 ComplexHeatmap_2.18.0 lubridate_1.9.3
[13] forcats_1.0.0 purrr_1.0.2 readr_2.1.5
[16] tidyr_1.3.1 tibble_3.2.1 tidyverse_2.0.0
[19] stringr_1.5.1 scales_1.3.0 glmGamPoi_1.14.3
[22] ggcharts_0.2.1 clusterProfiler_4.10.1 org.Mm.eg.db_3.8.2
[25] AnnotationDbi_1.64.1 devtools_2.4.5 usethis_2.2.3
[28] dplyr_1.1.4 fgsea_1.28.0 EnhancedVolcano_1.13.2
[31] ggrepel_0.9.5 ggplot2_3.5.1 openxlsx_4.2.5.2
[34] writexl_1.5.0 MAST_1.28.0 SingleCellExperiment_1.24.0
[37] SummarizedExperiment_1.32.0 Biobase_2.62.0 GenomicRanges_1.54.1
[40] GenomeInfoDb_1.38.8 IRanges_2.36.0 S4Vectors_0.40.2
[43] BiocGenerics_0.48.1 MatrixGenerics_1.14.0 matrixStats_1.0.0
[46] Seurat_5.0.3 SeuratObject_5.0.2 sp_2.1-4
[49] Matrix_1.6-5
loaded via a namespace (and not attached):
[1] progress_1.2.3 urlchecker_1.0.1 goftest_1.2-3
[4] Biostrings_2.70.3 vctrs_0.6.5 spatstat.random_3.2-3
[7] digest_0.6.35 png_0.1-8 shape_1.4.6.1
[10] deldir_2.0-4 parallelly_1.37.1 magick_2.8.3
[13] MASS_7.3-60.0.1 reshape2_1.4.4 httpuv_1.6.15
[16] foreach_1.5.2 qvalue_2.34.0 withr_3.0.0
[19] ggrastr_1.0.2 xfun_0.43 ggfun_0.1.4
[22] ellipsis_0.3.2 survival_3.6-4 memoise_2.0.1
[25] ggbeeswarm_0.7.2 gson_0.1.0 profvis_0.3.8
[28] systemfonts_1.0.6 ragg_1.3.0 tidytree_0.4.6
[31] zoo_1.8-12 GlobalOptions_0.1.2 pbapply_1.7-2
[34] GGally_2.2.1 standR_1.4.2 prettyunits_1.2.0
[37] KEGGREST_1.42.0 promises_1.3.0 httr_1.4.7
[40] globals_0.16.3 fitdistrplus_1.1-11 rstudioapi_0.16.0
[43] miniUI_0.1.1.1 generics_0.1.3 DOSE_3.28.2
[46] ggalluvial_0.12.5 zlibbioc_1.48.2 ScaledMatrix_1.8.1
[49] ggraph_2.2.1 polyclip_1.10-6 GenomeInfoDbData_1.2.11
[52] SparseArray_1.2.4 xtable_1.8-4 doParallel_1.0.17
[55] evaluate_0.23 S4Arrays_1.2.1 hms_1.1.3
[58] irlba_2.3.5.1 colorspace_2.1-0 ROCR_1.0-11
[61] reticulate_1.36.1 spatstat.data_3.0-4 magrittr_2.0.3
[64] lmtest_0.9-40 later_1.3.2 viridis_0.6.5
[67] ggtree_3.10.1 lattice_0.22-6 spatstat.geom_3.2-9
[70] future.apply_1.11.2 scattermore_1.2 scuttle_1.10.3
[73] shadowtext_0.1.3 cowplot_1.1.3 RcppAnnoy_0.0.22
[76] pillar_1.9.0 nlme_3.1-164 iterators_1.0.14
[79] compiler_4.3.3 beachmat_2.16.0 RSpectra_0.16-1
[82] stringi_1.8.3 minqa_1.2.6 tensor_1.5
[85] plyr_1.8.9 crayon_1.5.2 abind_1.4-5
[88] scater_1.28.0 gridGraphics_0.5-1 locfit_1.5-9.9
[91] graphlayouts_1.1.1 bit_4.0.5 fastmatch_1.1-4
[94] codetools_0.2-20 textshaping_0.3.7 BiocSingular_1.16.0
[97] openssl_2.1.2 GetoptLong_1.0.5 plotly_4.10.4
[100] mime_0.12 splines_4.3.3 Rcpp_1.0.12
[103] fastDummies_1.7.3 sparseMatrixStats_1.12.2 HDO.db_0.99.1
[106] cellranger_1.1.0 blob_1.2.4 utf8_1.2.4
[109] clue_0.3-65 lme4_1.1-35.3 fs_1.6.4
[112] listenv_0.9.1 DelayedMatrixStats_1.22.6 pkgbuild_1.4.4
[115] ggplotify_0.1.2 tzdb_0.4.0 tweenr_2.0.3
[118] pkgconfig_2.0.3 pheatmap_1.0.12 tools_4.3.3
[121] cachem_1.0.8 RSQLite_2.3.6 numDeriv_2016.8-1.1
[124] viridisLite_0.4.2 DBI_1.2.2 rmarkdown_2.26
[127] fastmap_1.1.1 outliers_0.15 ica_1.0-3
[130] ggstats_0.6.0 BiocManager_1.30.22 dotCall64_1.1-1
[133] RANN_2.6.1 farver_2.1.1 tidygraph_1.3.1
[136] scatterpie_0.2.2 yaml_2.3.8 ggthemes_5.1.0
[139] cli_3.6.2 leiden_0.4.3.1 lifecycle_1.0.4
[142] askpass_1.2.0 uwot_0.1.16 sessioninfo_1.2.2
[145] BiocParallel_1.36.0 timechange_0.3.0 gtable_0.3.5
[148] rjson_0.2.21 umap_0.2.10.0 ggridges_0.5.6
[151] progressr_0.14.0 parallel_4.3.3 ape_5.8
[154] jsonlite_1.8.8 RcppHNSW_0.6.0 bitops_1.0-7
[157] bit64_4.0.5 Rtsne_0.17 yulab.utils_0.1.4
[160] spatstat.utils_3.0-4 BiocNeighbors_1.20.2 zip_2.3.1
[163] GOSemSim_2.28.1 lazyeval_0.2.2 shiny_1.8.1.1
[166] htmltools_0.5.8.1 enrichplot_1.22.0 GO.db_3.18.0
[169] sctransform_0.4.1 glue_1.7.0 spam_2.10-0
[172] XVector_0.42.0 RCurl_1.98-1.14 treeio_1.26.0
[175] gridExtra_2.3 boot_1.3-30 EnvStats_2.8.1
[178] igraph_2.0.3 R6_2.5.1 ggiraph_0.8.9
[181] labeling_0.4.3 cluster_2.1.6 pkgload_1.3.4
[184] aplot_0.2.2 nloptr_2.0.3 DelayedArray_0.28.0
[187] tidyselect_1.2.1 vipor_0.4.7 future_1.33.2
[190] rsvd_1.0.5 munsell_0.5.1 KernSmooth_2.23-22
[193] BiocStyle_2.30.0 data.table_1.15.4 htmlwidgets_1.6.4
[196] rlang_1.1.3 spatstat.sparse_3.0-3 spatstat.explore_3.2-7
[199] lmerTest_3.1-3 uuid_1.2-0 remotes_2.5.0
[202] ggnewscale_0.4.10 fansi_1.0.6 Cairo_1.6-2
[205] beeswarm_0.4.0