diff --git a/.gitignore b/.gitignore index ccd5e6b..c7cb5be 100644 --- a/.gitignore +++ b/.gitignore @@ -5,3 +5,4 @@ inst/doc renv/ renv.lock .Rprofile +docs/ \ No newline at end of file diff --git a/pkgdown/extra.css b/pkgdown/extra.css new file mode 100644 index 0000000..eeac7ec --- /dev/null +++ b/pkgdown/extra.css @@ -0,0 +1,85 @@ +/* +Developed and maintained by Kevin Rue-Albrecht (@kevinrue) +*/ + +/* +#0092ac blue +#00758a darker blue (active menu) +#c4d931 green (on blue) +#87b13f green (on white) +*/ + +.headroom { + background-color: #0092ac; +} + +.navbar-default .navbar-nav>.active>a, +.navbar-default .navbar-nav>.active>a:hover, +.navbar-default .navbar-nav>.active>a:focus { + color: #c4d931; + background-color: #00758a; +} + +.navbar-default .navbar-nav>.open>a, +.navbar-default .navbar-nav>.open>a:hover, +.navbar-default .navbar-nav>.open>a:focus { + color: #c4d931; + background-color: #00758a; +} + +.dropdown-menu>.active>a, +.dropdown-menu>.active>a:hover, +.dropdown-menu>.active>a:focus { + color: #c4d931; + background-color: #00758a; +} + +.navbar-default .navbar-nav>li>a:hover, +.navbar-default .navbar-nav>li>a:focus { + color: #c4d931; +} + +.dropdown-menu>li>a:hover { + color: #87b13f; + background-color: #ffffff; +} + +.navbar-default .navbar-nav>li>a { + color: #ffffff; +} + +h1 { + color: #87b13f; +} + +h2 { + color: #87b13f; +} + +h3 { + color: #1a81c2; + font-weight: bold; +} + +.btn-copy-ex { + color: #ffffff; + background-color: #0092ac; + border-color: #0092ac; +} + +.btn-copy-ex:hover { + color: #ffffff; + background-color: #00758a; + border-color: #00758a; +} + +.btn-copy-ex:active:focus { + color: #c4d931; + background-color: #00758a; + border-color: #0092ac; +} + +p>.fa, +p>.fas { + color: #0092ac; +} diff --git a/vignettes/workshop_isee_extension.Rmd b/vignettes/workshop_isee_extension.Rmd index bd905fe..71061af 100644 --- a/vignettes/workshop_isee_extension.Rmd +++ b/vignettes/workshop_isee_extension.Rmd @@ -1,9 +1,9 @@ --- -title: "Writing an iSEE extension" +title: "Writing iSEE extensions" author: Kevin Rue-Albrecht^[kevinrue67@gmail.com],Federico Marini^[marinif@uni-mainz.de], Charlotte Soneson^[charlottesoneson@gmail.com] output: rmarkdown::html_vignette vignette: > - %\VignetteIndexEntry{Writing an iSEE extension} + %\VignetteIndexEntry{Writing iSEE extensions} %\VignetteEngine{knitr::rmarkdown} %\VignetteEncoding{UTF-8} --- @@ -16,7 +16,7 @@ knitr::opts_chunk$set( ) ``` -# Writing an iSEE extension +# Writing iSEE extensions Authors: Kevin Rue-Albrecht^[University of Oxford], @@ -36,20 +36,33 @@ packages. ### Pre-requisites +Workshop prerequisites: + * Familiarity with the SummarizedExperiment class. * Familiarity with the shiny package -List any workshop prerequisites, for example: - -* Basic knowledge of R syntax -* Familiarity with the GenomicRanges class -* Familiarity with xyz vignette (provide link) - -List relevant background reading for the workshop, including any -theoretical background you expect students to have. - -* List any textbooks, papers, or other reading that students should be - familiar with. Include direct links where possible. +Relevant background reading: + +* EuroBioC2023: + ( + [workshop](https://isee.github.io/iSEEDemoEuroBioC2023/articles/iSEEdemo.html) + ) +* EuroBioC2020: + ( + [workshop](https://isee.github.io/iSEEWorkshopEuroBioc2020/), + [slides](https://isee.github.io/iSEEWorkshopEuroBioc2020Slides/) + ) +* BioC2020: + ( + [workshop](https://isee.github.io/iSEEWorkshop2020/), + [slides](https://isee.github.io/iSEEWorkshop2020Slides/) + ) +* BioC2019 + ( + [workshop](https://isee.github.io/iSEEWorkshop2019/), + [slides](https://isee.github.io/iSEEWorkshop2019Slides/) + ) +* Rue-Albrecht K, Marini F, Soneson C and Lun ATL. iSEE: Interactive SummarizedExperiment Explorer [version 1; peer review: 3 approved]. F1000Research 2018, 7:741 (https://doi.org/10.12688/f1000research.14966.1) ### Participation