Package: BiocBook 1.11.4

Jacques Serizay

BiocBook: Write, containerize, publish and version Quarto books with Bioconductor

A BiocBook can be created by authors (e.g. R developers, but also scientists, teachers, communicators, ...) who wish to 1) write (compile a body of biological and/or bioinformatics knowledge), 2) containerize (provide Docker images to reproduce the examples illustrated in the compendium), 3) publish (deploy an online book to disseminate the compendium), and 4) version (automatically generate specific online book versions and Docker images for specific Bioconductor releases).

Authors:Jacques Serizay [aut, cre]

BiocBook_1.11.4.tar.gz
BiocBook_1.11.4.zip(r-4.7-any)BiocBook_1.11.4.zip(r-4.6-any)BiocBook_1.11.4.zip(r-4.5-any)
BiocBook_1.11.4.tgz(r-4.6-any)BiocBook_1.11.4.tgz(r-4.5-any)
BiocBook_1.11.4.tar.gz(r-4.7-any)BiocBook_1.11.4.tar.gz(r-4.6-any)
BiocBook_1.11.4.tgz(r-4.6-emscripten)
manual.pdf |manual.html✨
DESCRIPTION |NEWS
card.svg |card.png
BiocBook/json (API)

# Install 'BiocBook' in R:

install.packages('BiocBook', repos = c('https://bioc.r-universe.dev', 'https://cloud.r-project.org'))

Bug tracker:https://github.com/js2264/biocbook/issues

On BioConductor:BiocBook-1.11.4(bioc 3.24)BiocBook-1.10.0(bioc 3.23)

infrastructure reportwriting software quarto

5.24 score 7 stars 7 scripts 353 downloads 24 exports 71 dependencies

Last updated from:15e8d15ab3. Checks:1 NOTE, 9 OK. Indexed: yes.

Target	Result	Time
bioc-checks	NOTE	149
linux-devel	OK	366
source / vignettes	OK	262
linux-release	OK	411
macos-release	OK	309
macos-oldrel	OK	272
windows-devel	OK	300
windows-release	OK	310
windows-oldrel	OK	333
wasm-release	OK	134

Exports:add_chapter add_preamble add_python_chapter BiocBook chapters check_deps edit_bib edit_css edit_page edit_requirements_yml edit_yml enrich_llms_txt from_bookdown init micromamba path preview publish python_envs quick_init releases setup_python show status

Dependencies:askpass base64enc BiocGenerics bslib cachem cli clipr crayon credentials curl desc digest dplyr evaluate fastmap fontawesome fs generics gert gitcreds glue here highr htmltools httr httr2 ini jquerylib jsonlite knitr later lattice lifecycle magrittr Matrix memoise mime openssl pak pillar pkgconfig png processx ps purrr quarto R6 rappdirs Rcpp RcppTOML renv reticulate rlang rmarkdown rprojroot rstudioapi sass stringi stringr sys tibble tidyselect tinytex usethis utf8 vctrs whisker withr xfun yaml zip

BiocBook: write Quarto books with Bioconductor

Rendered fromBiocBook.Rmdusingknitr::rmarkdown

Last update: 2023-10-04
Started: 2023-09-28

Citation

Development and contributors

Readme and manuals

Help Manual

Help page	Topics
Handling BiocBook directories	BiocBook BiocBook-class chapters chapters,BiocBook-method init path,BiocBook-method quick_init releases releases,BiocBook-method show,BiocBook-method
Converting a 'bookdown' book to a BiocBook	BiocBook-bookdown from_bookdown
Editing BiocBook accessory files	add_chapter add_preamble add_python_chapter BiocBook-editing check_deps edit_bib edit_css edit_page edit_requirements_yml edit_yml preview publish status
Making a BiocBook readable by AI assistants	BiocBook-llms enrich_llms_txt
Executing 'python' code in a BiocBook	BiocBook-python micromamba python_envs setup_python