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sessionInfo.txt
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R version 4.2.3 (2023-03-15)
Platform: x86_64-pc-linux-gnu (64-bit)
Running under: Devuan GNU/Linux 4 (chimaera)
Matrix products: default
BLAS: /usr/lib/x86_64-linux-gnu/openblas-pthread/libblas.so.3
LAPACK: /usr/lib/x86_64-linux-gnu/openblas-pthread/libopenblasp-r0.3.13.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] parallel stats4 stats graphics grDevices utils datasets methods base
other attached packages:
[1] doParallel_1.0.17 iterators_1.0.14
[3] foreach_1.5.2 stringi_1.8.3
[5] fmsb_0.7.5 viridis_0.6.4
[7] viridisLite_0.4.2 sensemakr_0.1.4
[9] BSgenome.Hsapiens.NCBI.GRCh38_1.3.1000 BSgenome.Mfascicularis.NCBI.6.0_1.5.0
[11] BSgenome_1.66.3 TFBSTools_1.36.0
[13] JASPAR2020_0.99.10 UpSetR_1.4.0
[15] pheatmap_1.0.12 vsn_3.66.0
[17] GenomicFeatures_1.50.4 BiocParallel_1.34.2
[19] glue_1.6.2 biomaRt_2.54.1
[21] rtracklayer_1.58.0 lmerTest_3.1-3
[23] lme4_1.1-34 Matrix_1.5-3
[25] readxl_1.4.3 ReactomePA_1.42.0
[27] topGO_2.50.0 SparseM_1.81
[29] GO.db_3.16.0 graph_1.76.0
[31] org.Hs.eg.db_3.16.0 AnnotationDbi_1.60.2
[33] RColorBrewer_1.1-3 wesanderson_0.3.6
[35] magrittr_2.0.3 plyranges_1.18.0
[37] Biostrings_2.66.0 XVector_0.38.0
[39] figpatch_0.2 DESeq2_1.40.2
[41] SummarizedExperiment_1.28.0 Biobase_2.58.0
[43] MatrixGenerics_1.10.0 matrixStats_1.0.0
[45] broom_1.0.5 patchwork_1.1.3
[47] GenomicRanges_1.50.2 GenomeInfoDb_1.34.9
[49] IRanges_2.32.0 S4Vectors_0.38.1
[51] BiocGenerics_0.44.0 data.table_1.14.8
[53] cowplot_1.1.1 RMySQL_0.10.25
[55] DBI_1.1.3 ggpubr_0.6.0
[57] lubridate_1.9.2 forcats_1.0.0
[59] stringr_1.5.1 dplyr_1.1.2
[61] purrr_1.0.2 readr_2.1.4
[63] tidyr_1.3.0 tibble_3.2.1
[65] ggplot2_3.4.3 tidyverse_2.0.0
[67] ape_5.7-1 ggtree_3.6.2
loaded via a namespace (and not attached):
[1] rappdirs_0.3.3 R.methodsS3_1.8.2 ragg_1.2.5
[4] bit64_4.0.5 knitr_1.43 DelayedArray_0.24.0
[7] R.utils_2.12.2 KEGGREST_1.38.0 RCurl_1.98-1.12
[10] generics_0.1.3 preprocessCore_1.60.2 RSQLite_2.3.1
[13] shadowtext_0.1.2 bit_4.0.5 tzdb_0.4.0
[16] enrichplot_1.18.4 xml2_1.3.5 DirichletMultinomial_1.40.0
[19] xfun_0.40 hms_1.1.3 evaluate_0.23
[22] fansi_1.0.4 restfulr_0.0.15 progress_1.2.2
[25] caTools_1.18.2 dbplyr_2.3.3 igraph_1.5.1
[28] backports_1.4.1 annotate_1.76.0 vctrs_0.6.3
[31] abind_1.4-5 cachem_1.0.8 withr_2.5.2
[34] ggforce_0.4.1 HDO.db_0.99.1 GenomicAlignments_1.34.1
[37] treeio_1.22.0 prettyunits_1.1.1 DOSE_3.24.2
[40] lazyeval_0.2.2 seqLogo_1.64.0 crayon_1.5.2
[43] pkgconfig_2.0.3 labeling_0.4.3 tweenr_2.0.2
[46] nlme_3.1-162 pkgload_1.3.3 rlang_1.1.1
[49] lifecycle_1.0.3 filelock_1.0.2 affyio_1.68.0
[52] BiocFileCache_2.6.1 cellranger_1.1.0 polyclip_1.10-4
[55] aplot_0.1.10 carData_3.0-5 boot_1.3-28.1
[58] png_0.1-8 rjson_0.2.21 bitops_1.0-7
[61] R.oo_1.25.0 gson_0.1.0 blob_1.2.4
[64] pdftools_3.3.3 qvalue_2.32.0 qpdf_1.3.2
[67] rstatix_0.7.2 gridGraphics_0.5-1 ggsignif_0.6.4
[70] CNEr_1.34.0 reactome.db_1.82.0 scales_1.2.1
[73] memoise_2.0.1 graphite_1.44.0 plyr_1.8.9
[76] partR2_0.9.1 zlibbioc_1.44.0 compiler_4.2.3
[79] scatterpie_0.2.1 BiocIO_1.8.0 Rsamtools_2.14.0
[82] cli_3.6.2 affy_1.76.0 MASS_7.3-58.2
[85] tidyselect_1.2.0 textshaping_0.3.6 yaml_2.3.7
[88] GOSemSim_2.24.0 askpass_1.1 locfit_1.5-9.8
[91] ggrepel_0.9.3 grid_4.2.3 fastmatch_1.1-4
[94] tools_4.2.3 timechange_0.2.0 rstudioapi_0.15.0
[97] TFMPvalue_0.0.9 gridExtra_2.3 farver_2.1.1
[100] ggraph_2.1.0 digest_0.6.33 BiocManager_1.30.23
[103] pracma_2.4.2 Rcpp_1.0.11 car_3.1-2
[106] httr_1.4.7 colorspace_2.1-0 XML_3.99-0.14
[109] splines_4.2.3 yulab.utils_0.0.6 tidytree_0.4.4
[112] graphlayouts_1.0.0 ggplotify_0.1.1 systemfonts_1.0.4
[115] xtable_1.8-4 jsonlite_1.8.7 nloptr_2.0.3
[118] poweRlaw_0.70.6 tidygraph_1.2.3 ggfun_0.1.1
[121] R6_2.5.1 pillar_1.9.0 htmltools_0.5.6
[124] fastmap_1.1.1 minqa_1.2.5 codetools_0.2-19
[127] fgsea_1.24.0 utf8_1.2.3 lattice_0.20-45
[130] numDeriv_2016.8-1.1 curl_5.0.2 gtools_3.9.5
[133] magick_2.7.4 limma_3.56.2 rmarkdown_2.24
[136] munsell_0.5.0 GenomeInfoDbData_1.2.9 reshape2_1.4.4
[139] gtable_0.3.4