[Session info:]
R version 3.5.1 (2018-07-02)
## Platform: x86_64-pc-linux-gnu (64-bit)
## Running under: Ubuntu 18.04 LTS
##
## Matrix products: default
## BLAS: /usr/lib/x86_64-linux-gnu/openblas/libblas.so.3
## LAPACK: /usr/lib/x86_64-linux-gnu/libopenblasp-r0.2.20.so
##
## 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
##
## attached base packages:
## [1] parallel stats4 stats graphics grDevices utils datasets
## [8] methods base
##
## other attached packages:
## [1] TxDb.Hsapiens.UCSC.hg19.knownGene_3.2.2
## [2] GenomicFeatures_1.32.0
## [3] GenomicRanges_1.32.3
## [4] GenomeInfoDb_1.16.0
## [5] igraph_1.2.1
## [6] GO.db_3.6.0
## [7] KEGGREST_1.20.0
## [8] org.Hs.eg.db_3.6.0
## [9] AnnotationDbi_1.42.1
## [10] IRanges_2.14.10
## [11] S4Vectors_0.18.3
## [12] Biobase_2.40.0
## [13] BiocGenerics_0.26.0
## [14] HTSanalyzeR2_0.99.15
## [15] BiocStyle_2.8.2
##
## loaded via a namespace (and not attached):
## [1] fgsea_1.6.0 colorspace_1.3-2
## [3] hwriter_1.3.2 rprojroot_1.3-2
## [5] XVector_0.20.0 affyio_1.50.0
## [7] DT_0.4 bit64_0.9-7
## [9] mvtnorm_1.0-8 codetools_0.2-15
## [11] splines_3.5.1 doParallel_1.0.11
## [13] robustbase_0.93-1.1 knitr_1.20
## [15] splots_1.46.0 Rsamtools_1.32.0
## [17] prada_1.56.0 annotate_1.58.0
## [19] cluster_2.0.7-1 Rmpfr_0.7-0
## [21] vsn_3.48.1 png_0.1-7
## [23] shinydashboard_0.7.0 graph_1.58.0
## [25] shiny_1.1.0 rrcov_1.4-4
## [27] compiler_3.5.1 httr_1.3.1
## [29] backports_1.1.2 assertthat_0.2.0
## [31] Matrix_1.2-14 lazyeval_0.2.1
## [33] limma_3.36.2 later_0.7.3
## [35] prettyunits_1.0.2 htmltools_0.3.6
## [37] tools_3.5.1 gmp_0.5-13.2
## [39] bindrcpp_0.2.2 GenomeInfoDbData_1.1.0
## [41] gtable_0.2.0 glue_1.3.0
## [43] affy_1.58.0 Category_2.46.0
## [45] dplyr_0.7.6 fastmatch_1.1-0
## [47] Rcpp_0.12.17 Biostrings_2.48.0
## [49] preprocessCore_1.42.0 rtracklayer_1.40.3
## [51] iterators_1.0.10 xfun_0.3
## [53] stringr_1.3.1 mime_0.5
## [55] miniUI_0.1.1.1 XML_3.98-1.12
## [57] BioNet_1.40.0 DEoptimR_1.0-8
## [59] zlibbioc_1.26.0 MASS_7.3-50
## [61] scales_0.5.0 RankProd_3.6.0
## [63] BiocInstaller_1.30.0 colourpicker_1.0
## [65] hms_0.4.2 promises_1.0.1
## [67] SummarizedExperiment_1.10.1 RBGL_1.56.0
## [69] RColorBrewer_1.1-2 curl_3.2
## [71] yaml_2.1.19 memoise_1.1.0
## [73] gridExtra_2.3 ggplot2_3.0.0
## [75] biomaRt_2.36.1 stringi_1.2.3
## [77] RSQLite_2.1.1 genefilter_1.62.0
## [79] cellHTS2_2.44.0 pcaPP_1.9-73
## [81] foreach_1.4.4 BiocParallel_1.14.1
## [83] matrixStats_0.53.1 rlang_0.2.1
## [85] pkgconfig_2.0.1 bitops_1.0-6
## [87] evaluate_0.11 lattice_0.20-35
## [89] purrr_0.2.5 bindr_0.1.1
## [91] GenomicAlignments_1.16.0 htmlwidgets_1.2
## [93] bit_1.1-14 tidyselect_0.2.4
## [95] GSEABase_1.42.0 plyr_1.8.4
## [97] magrittr_1.5 bookdown_0.7
## [99] R6_2.2.2 DelayedArray_0.6.1
## [101] DBI_1.0.0 pillar_1.3.0
## [103] survival_2.42-3 RCurl_1.95-4.11
## [105] tibble_1.4.2 crayon_1.3.4
## [107] rmarkdown_1.10 progress_1.2.0
## [109] locfit_1.5-9.1 grid_3.5.1
## [111] data.table_1.11.4 blob_1.1.1
## [113] digest_0.6.15 xtable_1.8-2
## [115] httpuv_1.4.5 munsell_0.5.0##