Final R Session

This is the final R session after all the code in this book is run sequentially.

#> ─ Session info ───────────────────────────────────────────────────────────────────────────────────────────────────────
#>  setting  value
#>  version  R version 4.4.0 (2024-04-24)
#>  os       Ubuntu 22.04.4 LTS
#>  system   x86_64, linux-gnu
#>  ui       X11
#>  language (EN)
#>  collate  en_US.UTF-8
#>  ctype    en_US.UTF-8
#>  tz       UTC
#>  date     2024-06-11
#>  pandoc   3.1.13 @ /usr/bin/ (via rmarkdown)
#> 
#> ─ Packages ───────────────────────────────────────────────────────────────────────────────────────────────────────────
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#>  alabaster.matrix       1.4.0       2024-04-30 [1] Bioconductor 3.19 (R 4.4.0)
#>  alabaster.ranges       1.4.1       2024-05-21 [1] Bioconductor 3.19 (R 4.4.0)
#>  alabaster.sce          1.4.0       2024-04-30 [1] Bioconductor 3.19 (R 4.4.0)
#>  alabaster.schemas      1.4.0       2024-04-30 [1] Bioconductor 3.19 (R 4.4.0)
#>  alabaster.se           1.4.1       2024-05-21 [1] Bioconductor 3.19 (R 4.4.0)
#>  annotate             * 1.82.0      2024-04-30 [1] Bioconductor 3.19 (R 4.4.0)
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#>  askpass                1.2.0       2023-09-03 [2] RSPM (R 4.4.0)
#>  attempt                0.3.1       2020-05-03 [1] RSPM (R 4.4.0)
#>  AUCell               * 1.26.0      2024-04-30 [1] Bioconductor 3.19 (R 4.4.0)
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#>  base64enc              0.1-3       2015-07-28 [2] RSPM (R 4.4.0)
#>  beachmat               2.20.0      2024-04-30 [1] Bioconductor 3.19 (R 4.4.0)
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#>  BiocManager            1.30.23     2024-05-04 [2] CRAN (R 4.4.0)
#>  BiocNeighbors          1.22.0      2024-04-30 [1] Bioconductor 3.19 (R 4.4.0)
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#>  Cairo                  1.6-2       2023-11-28 [1] RSPM (R 4.4.0)
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#>  celldex              * 1.14.0      2024-05-02 [1] Bioconductor 3.19 (R 4.4.0)
#>  checkmate              2.3.1       2023-12-04 [1] RSPM (R 4.4.0)
#>  circlize             * 0.4.16      2024-02-20 [1] RSPM (R 4.4.0)
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#>  cluster                2.1.6       2023-12-01 [3] CRAN (R 4.4.0)
#>  codetools              0.2-20      2024-03-31 [3] CRAN (R 4.4.0)
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#>  config                 0.3.2       2023-08-30 [1] RSPM (R 4.4.0)
#>  corpcor                1.6.10      2021-09-16 [1] RSPM (R 4.4.0)
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#>  digest                 0.6.35      2024-03-11 [2] RSPM (R 4.4.0)
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#>  dotCall64              1.1-1       2023-11-28 [1] RSPM (R 4.4.0)
#>  dplyr                  1.1.4       2023-11-17 [1] RSPM (R 4.4.0)
#>  dqrng                  0.4.1       2024-05-28 [1] RSPM (R 4.4.0)
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#>  DT                     0.33        2024-04-04 [1] RSPM (R 4.4.0)
#>  dynamicTreeCut       * 1.63-1      2016-03-11 [1] RSPM (R 4.4.0)
#>  edgeR                * 4.2.0       2024-04-30 [1] Bioconductor 3.19 (R 4.4.0)
#>  EnsDb.Hsapiens.v86   * 2.99.0      2024-05-27 [1] Bioconductor
#>  ensembldb            * 2.28.0      2024-04-30 [1] Bioconductor 3.19 (R 4.4.0)
#>  EnvStats               2.8.1       2023-08-22 [1] RSPM (R 4.4.0)
#>  evaluate               0.24.0      2024-06-10 [2] RSPM (R 4.4.0)
#>  ExperimentHub        * 2.12.0      2024-04-30 [1] Bioconductor 3.19 (R 4.4.0)
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#>  filelock               1.0.3       2023-12-11 [1] RSPM (R 4.4.0)
#>  FNN                    1.1.4       2024-01-12 [1] RSPM (R 4.4.0)
#>  foreach                1.5.2       2022-02-02 [1] RSPM (R 4.4.0)
#>  foreign                0.8-86      2023-11-28 [3] CRAN (R 4.4.0)
#>  Formula                1.2-5       2023-02-24 [1] RSPM (R 4.4.0)
#>  fs                     1.6.4       2024-04-25 [2] RSPM (R 4.4.0)
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#>  GenomeInfoDb         * 1.40.1      2024-05-24 [1] Bioconductor 3.19 (R 4.4.0)
#>  GenomeInfoDbData       1.2.12      2024-05-26 [1] Bioconductor
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#>  ggbeeswarm             0.7.2       2023-04-29 [1] RSPM (R 4.4.0)
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#>  gh                   * 1.4.1       2024-03-28 [2] RSPM (R 4.4.0)
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#>  golem                  0.4.1       2023-06-05 [1] RSPM (R 4.4.0)
#>  gplots                 3.1.3.1     2024-02-02 [1] RSPM (R 4.4.0)
#>  graph                * 1.82.0      2024-04-30 [1] Bioconductor 3.19 (R 4.4.0)
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#>  htmltools              0.5.8.1     2024-04-04 [2] RSPM (R 4.4.0)
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#>  rsvd                   1.0.5       2021-04-16 [1] RSPM (R 4.4.0)
#>  rtracklayer            1.64.0      2024-04-30 [1] Bioconductor 3.19 (R 4.4.0)
#>  Rtsne                  0.17        2023-12-07 [1] RSPM (R 4.4.0)
#>  S4Arrays               1.4.1       2024-05-20 [1] Bioconductor 3.19 (R 4.4.0)
#>  S4Vectors            * 0.42.0      2024-04-30 [1] Bioconductor 3.19 (R 4.4.0)
#>  sass                   0.4.9       2024-03-15 [2] RSPM (R 4.4.0)
#>  ScaledMatrix           1.12.0      2024-04-30 [1] Bioconductor 3.19 (R 4.4.0)
#>  scales                 1.3.0       2023-11-28 [1] RSPM (R 4.4.0)
#>  scater               * 1.32.0      2024-04-30 [1] Bioconductor 3.19 (R 4.4.0)
#>  scatterplot3d          0.3-44      2023-05-05 [1] RSPM (R 4.4.0)
#>  scran                * 1.32.0      2024-04-30 [1] Bioconductor 3.19 (R 4.4.0)
#>  scRNAseq             * 2.18.0      2024-05-02 [1] Bioconductor 3.19 (R 4.4.0)
#>  scuttle              * 1.14.0      2024-04-30 [1] Bioconductor 3.19 (R 4.4.0)
#>  segmented              2.1-0       2024-05-14 [1] RSPM (R 4.4.0)
#>  sessioninfo          * 1.2.2       2021-12-06 [2] RSPM (R 4.4.0)
#>  shape                  1.4.6.1     2024-02-23 [1] RSPM (R 4.4.0)
#>  shiny                  1.8.1.1     2024-04-02 [2] RSPM (R 4.4.0)
#>  shinyAce               0.4.2       2022-05-06 [1] RSPM (R 4.4.0)
#>  shinydashboard         0.7.2       2021-09-30 [1] RSPM (R 4.4.0)
#>  shinyjs                2.1.0       2021-12-23 [1] RSPM (R 4.4.0)
#>  shinyWidgets           0.8.6       2024-04-24 [1] RSPM (R 4.4.0)
#>  SingleCellExperiment * 1.26.0      2024-04-30 [1] Bioconductor 3.19 (R 4.4.0)
#>  SingleR              * 2.6.0       2024-04-30 [1] Bioconductor 3.19 (R 4.4.0)
#>  smokingMouse         * 0.99.91     2024-06-11 [1] Github (LieberInstitute/smokingMouse@96d8480)
#>  spam                   2.10-0      2023-10-23 [1] RSPM (R 4.4.0)
#>  SparseArray            1.4.8       2024-05-24 [1] Bioconductor 3.19 (R 4.4.0)
#>  sparseMatrixStats      1.16.0      2024-04-30 [1] Bioconductor 3.19 (R 4.4.0)
#>  SpatialExperiment    * 1.14.0      2024-05-01 [1] Bioconductor 3.19 (R 4.4.0)
#>  spatialLIBD          * 1.16.2      2024-05-28 [1] Bioconductor 3.19 (R 4.4.0)
#>  statmod                1.5.0       2023-01-06 [1] RSPM (R 4.4.0)
#>  stringi                1.8.4       2024-05-06 [2] RSPM (R 4.4.0)
#>  stringr              * 1.5.1       2023-11-14 [2] RSPM (R 4.4.0)
#>  styler                 1.10.3      2024-04-07 [1] RSPM (R 4.4.0)
#>  SummarizedExperiment * 1.34.0      2024-05-01 [1] Bioconductor 3.19 (R 4.4.0)
#>  survival               3.7-0       2024-06-05 [3] RSPM (R 4.4.0)
#>  sys                    3.4.2       2023-05-23 [2] RSPM (R 4.4.0)
#>  testthat             * 3.2.1.1     2024-04-14 [2] RSPM (R 4.4.0)
#>  tibble                 3.2.1       2023-03-20 [2] RSPM (R 4.4.0)
#>  tidyr                  1.3.1       2024-01-24 [1] RSPM (R 4.4.0)
#>  tidyselect             1.2.1       2024-03-11 [1] RSPM (R 4.4.0)
#>  timechange             0.3.0       2024-01-18 [1] RSPM (R 4.4.0)
#>  UCSC.utils             1.0.0       2024-04-30 [1] Bioconductor 3.19 (R 4.4.0)
#>  usethis              * 2.2.3       2024-02-19 [2] RSPM (R 4.4.0)
#>  utf8                   1.2.4       2023-10-22 [2] RSPM (R 4.4.0)
#>  uwot                   0.2.2       2024-04-21 [1] RSPM (R 4.4.0)
#>  variancePartition    * 1.34.0      2024-04-30 [1] Bioconductor 3.19 (R 4.4.0)
#>  vctrs                  0.6.5       2023-12-01 [2] RSPM (R 4.4.0)
#>  vipor                  0.4.7       2023-12-18 [1] RSPM (R 4.4.0)
#>  viridis                0.6.5       2024-01-29 [1] RSPM (R 4.4.0)
#>  viridisLite            0.4.2       2023-05-02 [1] RSPM (R 4.4.0)
#>  whisker                0.4.1       2022-12-05 [2] RSPM (R 4.4.0)
#>  withr                  3.0.0       2024-01-16 [2] RSPM (R 4.4.0)
#>  xfun                   0.44        2024-05-15 [2] RSPM (R 4.4.0)
#>  XML                  * 3.99-0.16.1 2024-01-22 [1] RSPM (R 4.4.0)
#>  xml2                   1.3.6       2023-12-04 [2] RSPM (R 4.4.0)
#>  xtable                 1.8-4       2019-04-21 [2] RSPM (R 4.4.0)
#>  XVector                0.44.0      2024-04-30 [1] Bioconductor 3.19 (R 4.4.0)
#>  yaml                   2.3.8       2023-12-11 [2] RSPM (R 4.4.0)
#>  zlibbioc               1.50.0      2024-04-30 [1] Bioconductor 3.19 (R 4.4.0)
#> 
#>  [1] /__w/_temp/Library
#>  [2] /usr/local/lib/R/site-library
#>  [3] /usr/local/lib/R/library
#> 
#> ──────────────────────────────────────────────────────────────────────────────────────────────────────────────────────

System curl version information:

curl::curl_version()
#> $version
#> [1] "7.81.0"
#> 
#> $ssl_version
#> [1] "OpenSSL/3.0.2"
#> 
#> $libz_version
#> [1] "1.2.11"
#> 
#> $libssh_version
#> [1] "libssh/0.9.6/openssl/zlib"
#> 
#> $libidn_version
#> [1] "2.3.2"
#> 
#> $host
#> [1] "x86_64-pc-linux-gnu"
#> 
#> $protocols
#>  [1] "dict"    "file"    "ftp"     "ftps"    "gopher"  "gophers" "http"    "https"   "imap"    "imaps"   "ldap"   
#> [12] "ldaps"   "mqtt"    "pop3"    "pop3s"   "rtmp"    "rtsp"    "scp"     "sftp"    "smb"     "smbs"    "smtp"   
#> [23] "smtps"   "telnet"  "tftp"   
#> 
#> $ipv6
#> [1] TRUE
#> 
#> $http2
#> [1] TRUE
#> 
#> $idn
#> [1] TRUE

This interactive book was last updated at 2024-06-11 20:06:47.743817.

© 2011-2023. All thoughts and opinions here are my own. The icon was designed by Mauricio Guzmán and is inspired by Huichol culture; it represents my community building interests.

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