SpatialData.book

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##  middle[[i]], : Invalid ORCID iD: 'YOUR-ORCID-ID'.

Package: SpatialData.book
Authors: First Last [aut, cre]
Compiled: 2024-12-15
Package version: 0.98.0
R version: R Under development (unstable) (2024-12-10 r87437)
BioC version: 3.21
License: MIT + file LICENSE

Welcome

This is the landing page of the BiocBook entitled .

This book introduces the reader to .

Docker image

A Docker image built from this repository is available here:

👉 ghcr.io/HelenaLC/spatialdata.book 🐳

Get started now 🎉

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/HelenaLC/spatialdata.book:devel R

RStudio Server

An 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/HelenaLC/spatialdata.book:devel

The initiated RStudio Server instance will be available at https://localhost:8787.

Session info

sessioninfo::session_info(
    installed.packages()[,"Package"], 
    include_base = TRUE
)
##  ─ Session info ────────────────────────────────────────────────────────────
##   setting  value
##   version  R Under development (unstable) (2024-12-10 r87437)
##   os       Ubuntu 24.04.1 LTS
##   system   x86_64, linux-gnu
##   ui       X11
##   language (EN)
##   collate  C
##   ctype    en_US.UTF-8
##   tz       Etc/UTC
##   date     2024-12-15
##   pandoc   3.6 @ /usr/bin/ (via rmarkdown)
##  
##  ─ Packages ────────────────────────────────────────────────────────────────
##   package          * version  date (UTC) lib source
##   askpass            1.2.1    2024-10-04 [2] CRAN (R 4.5.0)
##   base             * 4.5.0    2024-12-12 [3] local
##   base64enc          0.1-3    2015-07-28 [2] CRAN (R 4.5.0)
##   BiocManager        1.30.25  2024-08-28 [2] CRAN (R 4.5.0)
##   BiocStyle          2.35.0   2024-10-29 [2] Bioconductor 3.21 (R 4.5.0)
##   BiocVersion        3.21.1   2024-10-29 [2] Bioconductor 3.21 (R 4.5.0)
##   bookdown           0.41     2024-10-16 [2] CRAN (R 4.5.0)
##   boot               1.3-31   2024-08-28 [3] CRAN (R 4.5.0)
##   brew               1.0-10   2023-12-16 [2] CRAN (R 4.5.0)
##   brio               1.1.5    2024-04-24 [2] CRAN (R 4.5.0)
##   bslib              0.8.0    2024-07-29 [2] CRAN (R 4.5.0)
##   cachem             1.1.0    2024-05-16 [2] CRAN (R 4.5.0)
##   callr              3.7.6    2024-03-25 [2] CRAN (R 4.5.0)
##   class              7.3-22   2023-05-03 [3] CRAN (R 4.5.0)
##   cli                3.6.3    2024-06-21 [2] CRAN (R 4.5.0)
##   clipr              0.8.0    2022-02-22 [2] CRAN (R 4.5.0)
##   cluster            2.1.8    2024-12-11 [3] CRAN (R 4.5.0)
##   codetools          0.2-20   2024-03-31 [3] CRAN (R 4.5.0)
##   commonmark         1.9.2    2024-10-04 [2] CRAN (R 4.5.0)
##   compiler           4.5.0    2024-12-12 [3] local
##   cpp11              0.5.1    2024-12-04 [2] CRAN (R 4.5.0)
##   crayon             1.5.3    2024-06-20 [2] CRAN (R 4.5.0)
##   credentials        2.0.2    2024-10-04 [2] CRAN (R 4.5.0)
##   curl               6.0.1    2024-11-14 [2] CRAN (R 4.5.0)
##   datasets         * 4.5.0    2024-12-12 [3] local
##   desc               1.4.3    2023-12-10 [2] CRAN (R 4.5.0)
##   devtools           2.4.5    2022-10-11 [2] CRAN (R 4.5.0)
##   diffobj            0.3.5    2021-10-05 [2] CRAN (R 4.5.0)
##   digest             0.6.37   2024-08-19 [2] CRAN (R 4.5.0)
##   docopt             0.7.1    2020-06-24 [2] CRAN (R 4.5.0)
##   downlit            0.4.4    2024-06-10 [2] CRAN (R 4.5.0)
##   ellipsis           0.3.2    2021-04-29 [2] CRAN (R 4.5.0)
##   evaluate           1.0.1    2024-10-10 [2] CRAN (R 4.5.0)
##   fansi              1.0.6    2023-12-08 [2] CRAN (R 4.5.0)
##   fastmap            1.2.0    2024-05-15 [2] CRAN (R 4.5.0)
##   fontawesome        0.5.3    2024-11-16 [2] CRAN (R 4.5.0)
##   foreign            0.8-87   2024-06-26 [3] CRAN (R 4.5.0)
##   fs                 1.6.5    2024-10-30 [2] CRAN (R 4.5.0)
##   gert               2.1.4    2024-10-14 [2] CRAN (R 4.5.0)
##   gh                 1.4.1    2024-03-28 [2] CRAN (R 4.5.0)
##   gitcreds           0.1.2    2022-09-08 [2] CRAN (R 4.5.0)
##   glue               1.8.0    2024-09-30 [2] CRAN (R 4.5.0)
##   graphics         * 4.5.0    2024-12-12 [3] local
##   grDevices        * 4.5.0    2024-12-12 [3] local
##   grid               4.5.0    2024-12-12 [3] local
##   highr              0.11     2024-05-26 [2] CRAN (R 4.5.0)
##   htmltools          0.5.8.1  2024-04-04 [2] CRAN (R 4.5.0)
##   htmlwidgets        1.6.4    2023-12-06 [2] CRAN (R 4.5.0)
##   httpuv             1.6.15   2024-03-26 [2] CRAN (R 4.5.0)
##   httr2              1.0.7    2024-11-26 [2] CRAN (R 4.5.0)
##   ini                0.3.1    2018-05-20 [2] CRAN (R 4.5.0)
##   jquerylib          0.1.4    2021-04-26 [2] CRAN (R 4.5.0)
##   jsonlite           1.8.9    2024-09-20 [2] CRAN (R 4.5.0)
##   KernSmooth         2.23-24  2024-05-17 [3] CRAN (R 4.5.0)
##   knitr              1.49     2024-11-08 [2] CRAN (R 4.5.0)
##   later              1.4.1    2024-11-27 [2] CRAN (R 4.5.0)
##   lattice            0.22-6   2024-03-20 [3] CRAN (R 4.5.0)
##   lifecycle          1.0.4    2023-11-07 [2] CRAN (R 4.5.0)
##   littler            0.3.20   2024-03-23 [2] CRAN (R 4.5.0)
##   magrittr           2.0.3    2022-03-30 [2] CRAN (R 4.5.0)
##   MASS               7.3-61   2024-06-13 [3] CRAN (R 4.5.0)
##   Matrix             1.7-1    2024-10-18 [3] CRAN (R 4.5.0)
##   memoise            2.0.1    2021-11-26 [2] CRAN (R 4.5.0)
##   methods          * 4.5.0    2024-12-12 [3] local
##   mgcv               1.9-1    2023-12-21 [3] CRAN (R 4.5.0)
##   mime               0.12     2021-09-28 [2] CRAN (R 4.5.0)
##   miniUI             0.1.1.1  2018-05-18 [2] CRAN (R 4.5.0)
##   nlme               3.1-166  2024-08-14 [3] CRAN (R 4.5.0)
##   nnet               7.3-19   2023-05-03 [3] CRAN (R 4.5.0)
##   openssl            2.2.2    2024-09-20 [2] CRAN (R 4.5.0)
##   parallel           4.5.0    2024-12-12 [3] local
##   pillar             1.9.0    2023-03-22 [2] CRAN (R 4.5.0)
##   pkgbuild           1.4.5    2024-10-28 [2] CRAN (R 4.5.0)
##   pkgconfig          2.0.3    2019-09-22 [2] CRAN (R 4.5.0)
##   pkgdown            2.1.1    2024-09-17 [2] CRAN (R 4.5.0)
##   pkgload            1.4.0    2024-06-28 [2] CRAN (R 4.5.0)
##   praise             1.0.0    2015-08-11 [2] CRAN (R 4.5.0)
##   preprocessCore     1.69.0   2024-10-29 [2] Bioconductor 3.21 (R 4.5.0)
##   prettyunits        1.2.0    2023-09-24 [2] CRAN (R 4.5.0)
##   processx           3.8.4    2024-03-16 [2] CRAN (R 4.5.0)
##   profvis            0.4.0    2024-09-20 [2] CRAN (R 4.5.0)
##   promises           1.3.2    2024-11-28 [2] CRAN (R 4.5.0)
##   ps                 1.8.1    2024-10-28 [2] CRAN (R 4.5.0)
##   purrr              1.0.2    2023-08-10 [2] CRAN (R 4.5.0)
##   R6                 2.5.1    2021-08-19 [2] CRAN (R 4.5.0)
##   ragg               1.3.3    2024-09-11 [2] CRAN (R 4.5.0)
##   rappdirs           0.3.3    2021-01-31 [2] CRAN (R 4.5.0)
##   rcmdcheck          1.4.0    2021-09-27 [2] CRAN (R 4.5.0)
##   Rcpp               1.0.13-1 2024-11-02 [2] CRAN (R 4.5.0)
##   remotes            2.5.0    2024-03-17 [2] CRAN (R 4.5.0)
##   rlang              1.1.4    2024-06-04 [2] CRAN (R 4.5.0)
##   rmarkdown          2.29     2024-11-04 [2] CRAN (R 4.5.0)
##   roxygen2           7.3.2    2024-06-28 [2] CRAN (R 4.5.0)
##   rpart              4.1.23   2023-12-05 [3] CRAN (R 4.5.0)
##   rprojroot          2.0.4    2023-11-05 [2] CRAN (R 4.5.0)
##   rstudioapi         0.17.1   2024-10-22 [2] CRAN (R 4.5.0)
##   rversions          2.1.2    2022-08-31 [2] CRAN (R 4.5.0)
##   sass               0.4.9    2024-03-15 [2] CRAN (R 4.5.0)
##   sessioninfo        1.2.2    2021-12-06 [2] CRAN (R 4.5.0)
##   shiny              1.9.1    2024-08-01 [2] CRAN (R 4.5.0)
##   sourcetools        0.1.7-1  2023-02-01 [2] CRAN (R 4.5.0)
##   spatial            7.3-17   2023-07-20 [3] CRAN (R 4.5.0)
##   SpatialData.book   0.98.0   2024-12-15 [1] local
##   splines            4.5.0    2024-12-12 [3] local
##   stats            * 4.5.0    2024-12-12 [3] local
##   stats4             4.5.0    2024-12-12 [3] local
##   stringi            1.8.4    2024-05-06 [2] CRAN (R 4.5.0)
##   stringr            1.5.1    2023-11-14 [2] CRAN (R 4.5.0)
##   survival           3.7-0    2024-06-05 [3] CRAN (R 4.5.0)
##   sys                3.4.3    2024-10-04 [2] CRAN (R 4.5.0)
##   systemfonts        1.1.0    2024-05-15 [2] CRAN (R 4.5.0)
##   tcltk              4.5.0    2024-12-12 [3] local
##   testthat           3.2.2    2024-12-10 [2] CRAN (R 4.5.0)
##   textshaping        0.4.1    2024-12-06 [2] CRAN (R 4.5.0)
##   tibble             3.2.1    2023-03-20 [2] CRAN (R 4.5.0)
##   tinytex            0.54     2024-11-01 [2] CRAN (R 4.5.0)
##   tools              4.5.0    2024-12-12 [3] local
##   urlchecker         1.0.1    2021-11-30 [2] CRAN (R 4.5.0)
##   usethis            3.1.0    2024-11-26 [2] CRAN (R 4.5.0)
##   utf8               1.2.4    2023-10-22 [2] CRAN (R 4.5.0)
##   utils            * 4.5.0    2024-12-12 [3] local
##   vctrs              0.6.5    2023-12-01 [2] CRAN (R 4.5.0)
##   waldo              0.6.1    2024-11-07 [2] CRAN (R 4.5.0)
##   whisker            0.4.1    2022-12-05 [2] CRAN (R 4.5.0)
##   withr              3.0.2    2024-10-28 [2] CRAN (R 4.5.0)
##   xfun               0.49     2024-10-31 [2] CRAN (R 4.5.0)
##   xml2               1.3.6    2023-12-04 [2] CRAN (R 4.5.0)
##   xopen              1.0.1    2024-04-25 [2] CRAN (R 4.5.0)
##   xtable             1.8-4    2019-04-21 [2] CRAN (R 4.5.0)
##   yaml               2.3.10   2024-07-26 [2] CRAN (R 4.5.0)
##   zip                2.3.1    2024-01-27 [2] CRAN (R 4.5.0)
##  
##   [1] /tmp/RtmpYGQiTn/Rinst8c42147589
##   [2] /usr/local/lib/R/site-library
##   [3] /usr/local/lib/R/library
##  
##  ───────────────────────────────────────────────────────────────────────────
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