Session info
## R version 4.2.2 (2022-10-31 ucrt)
## Platform: x86_64-w64-mingw32/x64 (64-bit)
## Running under: Windows 10 x64 (build 22621)
##
## Matrix products: default
##
## locale:
## [1] LC_COLLATE=English_United Kingdom.utf8 LC_CTYPE=English_United Kingdom.utf8
## [3] LC_MONETARY=English_United Kingdom.utf8 LC_NUMERIC=C
## [5] LC_TIME=English_United Kingdom.utf8
##
## attached base packages:
## [1] grid stats4 stats graphics grDevices utils datasets methods base
##
## other attached packages:
## [1] EnhancedVolcano_1.14.0 ComplexHeatmap_2.12.1 PCAtools_2.8.0
## [4] ggrepel_0.9.2 DT_0.26 tibble_3.1.8
## [7] dplyr_1.0.10 IsoformSwitchAnalyzeR_1.18.0 ggplot2_3.4.0
## [10] DEXSeq_1.42.0 RColorBrewer_1.1-3 AnnotationDbi_1.58.0
## [13] DESeq2_1.36.0 SummarizedExperiment_1.26.1 GenomicRanges_1.48.0
## [16] GenomeInfoDb_1.32.4 IRanges_2.30.1 S4Vectors_0.34.0
## [19] MatrixGenerics_1.8.1 matrixStats_0.63.0 Biobase_2.56.0
## [22] BiocGenerics_0.42.0 BiocParallel_1.30.4 edgeR_3.38.4
## [25] limma_3.52.4
##
## loaded via a namespace (and not attached):
## [1] circlize_0.4.15 AnnotationHub_3.4.0 BiocFileCache_2.4.0
## [4] DRIMSeq_1.24.0 plyr_1.8.8 lazyeval_0.2.2
## [7] tximeta_1.14.1 splines_4.2.2 digest_0.6.31
## [10] foreach_1.5.2 ensembldb_2.20.2 htmltools_0.5.4
## [13] magick_2.7.3 fansi_1.0.3 magrittr_2.0.3
## [16] memoise_2.0.1 BSgenome_1.64.0 ScaledMatrix_1.4.1
## [19] cluster_2.1.4 doParallel_1.0.17 tzdb_0.3.0
## [22] Biostrings_2.64.1 readr_2.1.3 annotate_1.74.0
## [25] vroom_1.6.0 prettyunits_1.1.1 jpeg_0.1-10
## [28] colorspace_2.0-3 blob_1.2.3 rappdirs_0.3.3
## [31] xfun_0.36 crayon_1.5.2 RCurl_1.98-1.9
## [34] jsonlite_1.8.4 tximport_1.24.0 genefilter_1.78.0
## [37] iterators_1.0.14 survival_3.4-0 glue_1.6.2
## [40] gtable_0.3.1 zlibbioc_1.42.0 XVector_0.36.0
## [43] GetoptLong_1.0.5 DelayedArray_0.22.0 BiocSingular_1.12.0
## [46] shape_1.4.6 scales_1.2.1 futile.options_1.0.1
## [49] DBI_1.1.3 Rcpp_1.0.9 xtable_1.8-4
## [52] progress_1.2.2 clue_0.3-63 dqrng_0.3.0
## [55] rsvd_1.0.5 bit_4.0.5 htmlwidgets_1.6.1
## [58] httr_1.4.4 ellipsis_0.3.2 farver_2.1.1
## [61] pkgconfig_2.0.3 XML_3.99-0.13 sass_0.4.4
## [64] dbplyr_2.2.1 locfit_1.5-9.7 utf8_1.2.2
## [67] labeling_0.4.2 tidyselect_1.2.0 rlang_1.0.6
## [70] reshape2_1.4.4 later_1.3.0 munsell_0.5.0
## [73] BiocVersion_3.15.2 tools_4.2.2 cachem_1.0.6
## [76] cli_3.6.0 generics_0.1.3 RSQLite_2.2.20
## [79] evaluate_0.20 stringr_1.5.0 fastmap_1.1.0
## [82] yaml_2.3.7 knitr_1.42 bit64_4.0.5
## [85] purrr_1.0.1 KEGGREST_1.36.3 AnnotationFilter_1.20.0
## [88] sparseMatrixStats_1.8.0 mime_0.12 formatR_1.14
## [91] xml2_1.3.3 biomaRt_2.52.0 compiler_4.2.2
## [94] rstudioapi_0.14 filelock_1.0.2 curl_5.0.0
## [97] png_0.1-8 interactiveDisplayBase_1.34.0 statmod_1.5.0
## [100] geneplotter_1.74.0 bslib_0.4.2 stringi_1.7.12
## [103] highr_0.10 futile.logger_1.4.3 GenomicFeatures_1.48.4
## [106] lattice_0.20-45 ProtGenerics_1.28.0 Matrix_1.5-3
## [109] vctrs_0.5.1 pillar_1.8.1 lifecycle_1.0.3
## [112] BiocManager_1.30.19 jquerylib_0.1.4 GlobalOptions_0.1.2
## [115] irlba_2.3.5.1 cowplot_1.1.1 bitops_1.0-7
## [118] httpuv_1.6.8 rtracklayer_1.56.1 R6_2.5.1
## [121] BiocIO_1.6.0 hwriter_1.3.2.1 bookdown_0.32
## [124] promises_1.2.0.1 gridExtra_2.3 codetools_0.2-18
## [127] lambda.r_1.2.4 assertthat_0.2.1 rjson_0.2.21
## [130] withr_2.5.0 GenomicAlignments_1.32.1 Rsamtools_2.12.0
## [133] GenomeInfoDbData_1.2.8 parallel_4.2.2 hms_1.1.2
## [136] beachmat_2.12.0 VennDiagram_1.7.3 tidyr_1.2.1
## [139] DelayedMatrixStats_1.18.2 rmarkdown_2.19 shiny_1.7.4
## [142] restfulr_0.0.15