bash
docker run -it ghcr.io/Bioconductor/classes.bioconductor.org:devel R
Package: biocclasses
Authors: Classes Working Group [aut, cre]
Compiled: 2026-03-12
Package version: 0.99.0
R version: R Under development (unstable) (2026-03-08 r89578)
BioC version: 3.23
License: Artistic-2.0
This is the landing page of the BiocBook entitled ….
This book introduces the reader to ….
A Docker image built from this repository is available here:
👉 ghcr.io/Bioconductor/classes.bioconductor.org 🐳
You can get access to all the packages used in this book in < 1 minute, using this command in a terminal:
bash
docker run -it ghcr.io/Bioconductor/classes.bioconductor.org:devel RAn RStudio Server instance can be initiated from the Docker image as follows:
bash
docker run \
--volume <local_folder>:<destination_folder> \
-e PASSWORD=OHCA \
-p 8787:8787 \
ghcr.io/Bioconductor/classes.bioconductor.org:develThe initiated RStudio Server instance will be available at https://localhost:8787.
sessioninfo::session_info(
installed.packages()[,"Package"],
include_base = TRUE
)
## ─ Session info ────────────────────────────────────────────────────────────
## setting value
## version R Under development (unstable) (2026-03-08 r89578)
## os Ubuntu 24.04.4 LTS
## system x86_64, linux-gnu
## ui X11
## language (EN)
## collate C
## ctype en_US.UTF-8
## tz Etc/UTC
## date 2026-03-12
## pandoc 3.9 @ /usr/bin/ (via rmarkdown)
## quarto 1.8.25 @ /usr/local/bin/quarto
##
## ─ Packages ────────────────────────────────────────────────────────────────
## package * version date (UTC) lib source
## askpass 1.2.1 2024-10-04 [2] CRAN (R 4.6.0)
## base * 4.6.0 2026-03-09 [3] local
## base64enc 0.1-6 2026-02-02 [2] CRAN (R 4.6.0)
## biocclasses 0.99.0 2026-03-12 [1] local
## BiocManager 1.30.27 2025-11-14 [2] CRAN (R 4.6.0)
## BiocStyle 2.39.0 2025-10-30 [2] Bioconductor 3.23 (R 4.6.0)
## BiocVersion 3.23.1 2025-10-30 [2] Bioconductor 3.23 (R 4.6.0)
## bookdown 0.46 2025-12-05 [2] CRAN (R 4.6.0)
## boot 1.3-32 2025-08-29 [3] CRAN (R 4.6.0)
## brew 1.0-10 2023-12-16 [2] CRAN (R 4.6.0)
## brio 1.1.5 2024-04-24 [2] CRAN (R 4.6.0)
## bslib 0.10.0 2026-01-26 [2] CRAN (R 4.6.0)
## cachem 1.1.0 2024-05-16 [2] CRAN (R 4.6.0)
## callr 3.7.6 2024-03-25 [2] CRAN (R 4.6.0)
## class 7.3-23 2025-01-01 [3] CRAN (R 4.6.0)
## cli 3.6.5 2025-04-23 [2] CRAN (R 4.6.0)
## clipr 0.8.0 2022-02-22 [2] CRAN (R 4.6.0)
## cluster 2.1.8.2 2026-02-05 [3] CRAN (R 4.6.0)
## codetools 0.2-20 2024-03-31 [3] CRAN (R 4.6.0)
## commonmark 2.0.0 2025-07-07 [2] CRAN (R 4.6.0)
## compiler 4.6.0 2026-03-09 [3] local
## cpp11 0.5.3 2026-01-20 [2] CRAN (R 4.6.0)
## crayon 1.5.3 2024-06-20 [2] CRAN (R 4.6.0)
## credentials 2.0.3 2025-09-12 [2] CRAN (R 4.6.0)
## curl 7.0.0 2025-08-19 [2] CRAN (R 4.6.0)
## datasets * 4.6.0 2026-03-09 [3] local
## desc 1.4.3 2023-12-10 [2] CRAN (R 4.6.0)
## devtools 2.4.6 2025-10-03 [2] CRAN (R 4.6.0)
## diffobj 0.3.6 2025-04-21 [2] CRAN (R 4.6.0)
## digest 0.6.39 2025-11-19 [2] CRAN (R 4.6.0)
## docopt 0.7.2 2025-03-25 [2] CRAN (R 4.6.0)
## downlit 0.4.5 2025-11-14 [2] CRAN (R 4.6.0)
## ellipsis 0.3.2 2021-04-29 [2] CRAN (R 4.6.0)
## evaluate 1.0.5 2025-08-27 [2] CRAN (R 4.6.0)
## fansi 1.0.7 2025-11-19 [2] CRAN (R 4.6.0)
## fastmap 1.2.0 2024-05-15 [2] CRAN (R 4.6.0)
## fontawesome 0.5.3 2024-11-16 [2] CRAN (R 4.6.0)
## foreign 0.8-91 2026-01-29 [3] CRAN (R 4.6.0)
## fs 1.6.7 2026-03-06 [2] CRAN (R 4.6.0)
## gert 2.3.1 2026-01-11 [2] CRAN (R 4.6.0)
## gh 1.5.0 2025-05-26 [2] CRAN (R 4.6.0)
## gitcreds 0.1.2 2022-09-08 [2] CRAN (R 4.6.0)
## glue 1.8.0 2024-09-30 [2] CRAN (R 4.6.0)
## graphics * 4.6.0 2026-03-09 [3] local
## grDevices * 4.6.0 2026-03-09 [3] local
## grid 4.6.0 2026-03-09 [3] local
## highr 0.12 2026-03-06 [2] CRAN (R 4.6.0)
## htmltools 0.5.9 2025-12-04 [2] CRAN (R 4.6.0)
## htmlwidgets 1.6.4 2023-12-06 [2] CRAN (R 4.6.0)
## httpuv 1.6.16 2025-04-16 [2] CRAN (R 4.6.0)
## httr2 1.2.2 2025-12-08 [2] CRAN (R 4.6.0)
## ini 0.3.1 2018-05-20 [2] CRAN (R 4.6.0)
## jquerylib 0.1.4 2021-04-26 [2] CRAN (R 4.6.0)
## jsonlite 2.0.0 2025-03-27 [2] CRAN (R 4.6.0)
## KernSmooth 2.23-26 2025-01-01 [3] CRAN (R 4.6.0)
## knitr 1.51 2025-12-20 [2] CRAN (R 4.6.0)
## later 1.4.8 2026-03-05 [2] CRAN (R 4.6.0)
## lattice 0.22-9 2026-02-09 [3] CRAN (R 4.6.0)
## lifecycle 1.0.5 2026-01-08 [2] CRAN (R 4.6.0)
## littler 0.3.22 2026-02-04 [2] CRAN (R 4.6.0)
## magrittr 2.0.4 2025-09-12 [2] CRAN (R 4.6.0)
## MASS 7.3-65 2025-02-28 [3] CRAN (R 4.6.0)
## Matrix 1.7-4 2025-08-28 [3] CRAN (R 4.6.0)
## memoise 2.0.1 2021-11-26 [2] CRAN (R 4.6.0)
## methods * 4.6.0 2026-03-09 [3] local
## mgcv 1.9-4 2025-11-07 [3] CRAN (R 4.6.0)
## mime 0.13 2025-03-17 [2] CRAN (R 4.6.0)
## miniUI 0.1.2 2025-04-17 [2] CRAN (R 4.6.0)
## nlme 3.1-168 2025-03-31 [3] CRAN (R 4.6.0)
## nnet 7.3-20 2025-01-01 [3] CRAN (R 4.6.0)
## openssl 2.3.5 2026-02-26 [2] CRAN (R 4.6.0)
## otel 0.2.0 2025-08-29 [2] CRAN (R 4.6.0)
## parallel 4.6.0 2026-03-09 [3] local
## pillar 1.11.1 2025-09-17 [2] CRAN (R 4.6.0)
## pkgbuild 1.4.8 2025-05-26 [2] CRAN (R 4.6.0)
## pkgconfig 2.0.3 2019-09-22 [2] CRAN (R 4.6.0)
## pkgdown 2.2.0 2025-11-06 [2] CRAN (R 4.6.0)
## pkgload 1.5.0 2026-02-03 [2] CRAN (R 4.6.0)
## praise 1.0.0 2015-08-11 [2] CRAN (R 4.6.0)
## preprocessCore 1.73.0 2025-10-30 [2] Bioconductor 3.23 (R 4.6.0)
## prettyunits 1.2.0 2023-09-24 [2] CRAN (R 4.6.0)
## processx 3.8.6 2025-02-21 [2] CRAN (R 4.6.0)
## profvis 0.4.0 2024-09-20 [2] CRAN (R 4.6.0)
## promises 1.5.0 2025-11-01 [2] CRAN (R 4.6.0)
## ps 1.9.1 2025-04-12 [2] CRAN (R 4.6.0)
## purrr 1.2.1 2026-01-09 [2] CRAN (R 4.6.0)
## R6 2.6.1 2025-02-15 [2] CRAN (R 4.6.0)
## ragg 1.5.1 2026-03-06 [2] CRAN (R 4.6.0)
## rappdirs 0.3.4 2026-01-17 [2] CRAN (R 4.6.0)
## rcmdcheck 1.4.0 2021-09-27 [2] CRAN (R 4.6.0)
## Rcpp 1.1.1 2026-01-10 [2] CRAN (R 4.6.0)
## remotes 2.5.0 2024-03-17 [2] CRAN (R 4.6.0)
## rlang 1.1.7 2026-01-09 [2] CRAN (R 4.6.0)
## rmarkdown 2.30 2025-09-28 [2] CRAN (R 4.6.0)
## roxygen2 7.3.3 2025-09-03 [2] CRAN (R 4.6.0)
## rpart 4.1.24 2025-01-07 [3] CRAN (R 4.6.0)
## rprojroot 2.1.1 2025-08-26 [2] CRAN (R 4.6.0)
## rstudioapi 0.18.0 2026-01-16 [2] CRAN (R 4.6.0)
## rversions 3.0.0 2025-10-09 [2] CRAN (R 4.6.0)
## sass 0.4.10 2025-04-11 [2] CRAN (R 4.6.0)
## sessioninfo 1.2.3 2025-02-05 [2] CRAN (R 4.6.0)
## shiny 1.13.0 2026-02-20 [2] CRAN (R 4.6.0)
## sourcetools 0.1.7-1 2023-02-01 [2] CRAN (R 4.6.0)
## spatial 7.3-18 2025-01-01 [3] CRAN (R 4.6.0)
## splines 4.6.0 2026-03-09 [3] local
## stats * 4.6.0 2026-03-09 [3] local
## stats4 4.6.0 2026-03-09 [3] local
## stringi 1.8.7 2025-03-27 [2] CRAN (R 4.6.0)
## stringr 1.6.0 2025-11-04 [2] CRAN (R 4.6.0)
## survival 3.8-6 2026-01-16 [3] CRAN (R 4.6.0)
## sys 3.4.3 2024-10-04 [2] CRAN (R 4.6.0)
## systemfonts 1.3.2 2026-03-05 [2] CRAN (R 4.6.0)
## tcltk 4.6.0 2026-03-09 [3] local
## testthat 3.3.2 2026-01-11 [2] CRAN (R 4.6.0)
## textshaping 1.0.5 2026-03-06 [2] CRAN (R 4.6.0)
## tibble 3.3.1 2026-01-11 [2] CRAN (R 4.6.0)
## tinytex 0.58 2025-11-19 [2] CRAN (R 4.6.0)
## tools 4.6.0 2026-03-09 [3] local
## urlchecker 1.0.1 2021-11-30 [2] CRAN (R 4.6.0)
## usethis 3.2.1 2025-09-06 [2] CRAN (R 4.6.0)
## utf8 1.2.6 2025-06-08 [2] CRAN (R 4.6.0)
## utils * 4.6.0 2026-03-09 [3] local
## vctrs 0.7.1 2026-01-23 [2] CRAN (R 4.6.0)
## waldo 0.6.2 2025-07-11 [2] CRAN (R 4.6.0)
## whisker 0.4.1 2022-12-05 [2] CRAN (R 4.6.0)
## withr 3.0.2 2024-10-28 [2] CRAN (R 4.6.0)
## xfun 0.56 2026-01-18 [2] CRAN (R 4.6.0)
## xml2 1.5.2 2026-01-17 [2] CRAN (R 4.6.0)
## xopen 1.0.1 2024-04-25 [2] CRAN (R 4.6.0)
## xtable 1.8-8 2026-02-22 [2] CRAN (R 4.6.0)
## yaml 2.3.12 2025-12-10 [2] CRAN (R 4.6.0)
## zip 2.3.3 2025-05-13 [2] CRAN (R 4.6.0)
##
## [1] /tmp/RtmpEmQxbw/Rinst8b5beb86a7
## [2] /usr/local/lib/R/site-library
## [3] /usr/local/lib/R/library
## * ── Packages attached to the search path.
##
## ───────────────────────────────────────────────────────────────────────────