Chapter 9 Session information
The session information below documents the packages and versions used to generate this material.
sessionInfo()## R version 3.6.0 RC (2019-04-21 r76417)
## Platform: x86_64-pc-linux-gnu (64-bit)
## Running under: Ubuntu 18.04.2 LTS
##
## Matrix products: default
## BLAS: /usr/lib/x86_64-linux-gnu/libf77blas.so.3.10.3
## LAPACK: /usr/lib/x86_64-linux-gnu/atlas/liblapack.so.3.10.3
##
## locale:
## [1] LC_CTYPE=en_US.UTF-8 LC_NUMERIC=C
## [3] LC_TIME=fr_FR.UTF-8 LC_COLLATE=en_US.UTF-8
## [5] LC_MONETARY=fr_FR.UTF-8 LC_MESSAGES=en_US.UTF-8
## [7] LC_PAPER=fr_FR.UTF-8 LC_NAME=C
## [9] LC_ADDRESS=C LC_TELEPHONE=C
## [11] LC_MEASUREMENT=fr_FR.UTF-8 LC_IDENTIFICATION=C
##
## attached base packages:
## [1] grid stats4 parallel stats graphics grDevices utils
## [8] datasets methods base
##
## other attached packages:
## [1] hexbin_1.27.2 forcats_0.4.0 stringr_1.4.0
## [4] dplyr_0.8.0.1 purrr_0.3.2 tibble_2.1.1
## [7] tidyverse_1.2.1 knitr_1.22 patchwork_0.0.1
## [10] plotly_4.9.0 ComplexHeatmap_2.0.0 RforProteomics_1.21.0
## [13] viridis_0.5.1 viridisLite_0.3.0 RColorBrewer_1.1-2
## [16] shiny_1.3.2 ggvis_0.4.4 UpSetR_1.3.3
## [19] Vennerable_3.1.0.9000 magrittr_1.5 tidyr_0.8.3
## [22] readr_1.3.1 MSstatsBioData_1.5.0 ALL_1.25.0
## [25] pRoloc_1.24.0 BiocParallel_1.18.0 MLInterfaces_1.64.0
## [28] cluster_2.0.9 annotate_1.62.0 XML_3.98-1.19
## [31] AnnotationDbi_1.46.0 IRanges_2.18.0 pRolocdata_1.21.0
## [34] affy_1.62.0 MSnbase_2.10.0 ProtGenerics_1.16.0
## [37] S4Vectors_0.22.0 mzR_2.18.0 Rcpp_1.0.1
## [40] msdata_0.23.0 ggplot2_3.1.1 bioDist_1.56.0
## [43] KernSmooth_2.23-15 Biobase_2.44.0 BiocGenerics_0.30.0
## [46] BiocStyle_2.12.0 limma_3.40.0
##
## loaded via a namespace (and not attached):
## [1] utf8_1.1.4 R.utils_2.8.0 RUnit_0.4.32
## [4] tidyselect_0.2.5 RSQLite_2.1.1 htmlwidgets_1.3
## [7] trimcluster_0.1-2.1 lpSolve_5.6.13 rda_1.0.2-2.1
## [10] munsell_0.5.0 codetools_0.2-16 preprocessCore_1.46.0
## [13] withr_2.1.2 colorspace_1.4-1 highr_0.8
## [16] rstudioapi_0.10 robustbase_0.93-4 mzID_1.22.0
## [19] labeling_0.3 hwriter_1.3.2 bit64_0.9-7
## [22] coda_0.19-2 generics_0.0.2 ipred_0.9-9
## [25] xfun_0.6 randomForest_4.6-14 diptest_0.75-7
## [28] R6_2.4.0 doParallel_1.0.14 clue_0.3-57
## [31] flexmix_2.3-15 nipals_0.5 bitops_1.0-6
## [34] assertthat_0.2.1 promises_1.0.1 scales_1.0.0
## [37] nnet_7.3-12 gtable_0.3.0 biocViews_1.52.0
## [40] timeDate_3043.102 rlang_0.3.4 genefilter_1.66.0
## [43] GlobalOptions_0.1.0 splines_3.6.0 lazyeval_0.2.2
## [46] ModelMetrics_1.2.2 impute_1.58.0 broom_0.5.2
## [49] modelr_0.1.4 BiocManager_1.30.4 yaml_2.2.0
## [52] reshape2_1.4.3 backports_1.1.4 threejs_0.3.1
## [55] crosstalk_1.0.0 httpuv_1.5.1 RBGL_1.60.0
## [58] caret_6.0-84 tools_3.6.0 lava_1.6.5
## [61] bookdown_0.9 affyio_1.54.0 proxy_0.4-23
## [64] plyr_1.8.4 base64enc_0.1-3 progress_1.2.0
## [67] zlibbioc_1.30.0 RCurl_1.95-4.12 prettyunits_1.0.2
## [70] rpart_4.1-15 GetoptLong_0.1.7 sampling_2.8
## [73] sfsmisc_1.1-3 haven_2.1.0 LaplacesDemon_16.1.1
## [76] data.table_1.12.2 circlize_0.4.6 pcaMethods_1.76.0
## [79] mvtnorm_1.0-10 whisker_0.3-2 hms_0.4.2
## [82] mime_0.6 evaluate_0.13 xtable_1.8-4
## [85] readxl_1.3.1 mclust_5.4.3 shape_1.4.4
## [88] gridExtra_2.3 compiler_3.6.0 biomaRt_2.40.0
## [91] ncdf4_1.16.1 crayon_1.3.4 R.oo_1.22.0
## [94] htmltools_0.3.6 segmented_0.5-3.0 later_0.8.0
## [97] lubridate_1.7.4 DBI_1.0.0 MASS_7.3-51.4
## [100] fpc_2.1-11.2 Matrix_1.2-17 cli_1.1.0
## [103] vsn_3.52.0 R.methodsS3_1.7.1 gdata_2.18.0
## [106] mlbench_2.1-1 gower_0.2.0 igraph_1.2.4.1
## [109] pkgconfig_2.0.2 recipes_0.1.5 xml2_1.2.0
## [112] MALDIquant_1.19.2 foreach_1.4.4 prodlim_2018.04.18
## [115] rvest_0.3.3 digest_0.6.18 pls_2.7-1
## [118] graph_1.62.0 cellranger_1.1.0 rmarkdown_1.12
## [121] dendextend_1.10.0 curl_3.3 kernlab_0.9-27
## [124] gtools_3.8.1 modeltools_0.2-22 rjson_0.2.20
## [127] jsonlite_1.6 nlme_3.1-139 fansi_0.4.0
## [130] pillar_1.3.1 lattice_0.20-38 httr_1.4.0
## [133] DEoptimR_1.0-8 survival_2.44-1.1 glue_1.3.1
## [136] FNN_1.1.3 gbm_2.1.5 png_0.1-7
## [139] prabclus_2.2-7 iterators_1.0.10 bit_1.1-14
## [142] class_7.3-15 stringi_1.4.3 mixtools_1.1.0
## [145] blob_1.1.1 memoise_1.1.0 e1071_1.7-1