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resources.qmd
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resources.qmd
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---
title: "Resources"
---
This page compiles a list of resources for learning to use and extend *iSEE* software.
## GitHub organisation
The link below redirects to the GitHub organisation that stores the source code for packages maintained by the core developers, as well as additional resources such as tutorials and workshops.
<https://github.com/iSEE>
## Bioconductor pages
{height="100px"}
The links below redirect to the web page for each package on the Bioconductor website.
Each page contains information and links to further resources for the latest version of each package available from Bioconductor.
::: {.callout-note}
The links below redirect either to the latest version of each package on the *release* branch if available,
or the latest version on the *development* branch for recent package that have are not reached a *release* branch yet.
For more information, see [Using Bioconductor](https://www.bioconductor.org/install/).
:::
::: {layout-ncol=3}
[iSEE](https://bioconductor.org/packages/iSEE/)
[iSEEde](https://bioconductor.org/packages/iSEEde/)
[iSEEhex](https://bioconductor.org/packages/iSEEhex/)
[iSEEhub](https://bioconductor.org/packages/iSEEhub/)
[iSEEindex](https://bioconductor.org/packages/iSEEindex/)
[iSEEpathways](https://bioconductor.org/packages/iSEEpathways/)
[iSEEu](https://bioconductor.org/packages/iSEEu/)
:::
## pkgdown websites
{height="100px"}
The links below redirect to help pages and vignettes for the latest version of each package pushed to GitHub.
::: {.callout-note}
The latest version pushed to GitHub may be *ahead* of the latest version available on Bioconductor.
As such, the documentation displayed in these websites may not correspond to the version of packages that you are using.
In doubt, always refer to help pages that you open in your own R session, using `?` or `help()`.
:::
::: {layout-ncol=3}
[iSEE](https://isee.github.io/iSEE/)
[iSEEde](https://isee.github.io/iSEEde/)
[iSEEhex](https://isee.github.io/iSEEhex/)
[iSEEhub](https://isee.github.io/iSEEhub/)
[iSEEindex](https://isee.github.io/iSEEindex/)
[iSEEpathways](https://isee.github.io/iSEEpathways/)
[iSEEu](https://isee.github.io/iSEEu/)
:::
## Workshops
### iUSEiSEE
{{< fa graduation-cap >}} **Materials:** [HTML](https://isee.github.io/iUSEiSEE/)
### European Bioconductor Conference 2024
{{< fa graduation-cap >}} **Materials:** [HTML](https://isee.github.io/iSEEDemoEuroBioC2024/articles/workshop_isee_extension.html)
{{< fa laptop-code >}} **Interactive workshop:** [Bioconductor Workshop Galaxy](https://workshop.bioconductor.org/)
Select "*Package demo: iSEE Interactive SummarizedExperiment Explorer*".
### European Bioconductor Conference 2023
{{< fa graduation-cap >}} **Materials:** [HTML](https://isee.github.io/iSEEDemoEuroBioC2023/articles/iSEEdemo.html)
### European Bioconductor Conference 2020
{{< fa graduation-cap >}} **Materials:** [HTML](https://isee.github.io/iSEEWorkshopEuroBioc2020/)
{{< fa person-chalkboard >}} **Slides:** [HTML](https://isee.github.io/iSEEWorkshopEuroBioc2020Slides/)
### Bioconductor Conference 2020 Workshop
{{< fa graduation-cap >}} **Materials:** [HTML](https://isee.github.io/iSEEWorkshop2020/)
{{< fa person-chalkboard >}} **Slides:** [HTML](https://isee.github.io/iSEEWorkshop2020Slides/)
### Bioconductor Conference 2019 Workshop
{{< fa graduation-cap >}} **Materials:** [HTML](https://isee.github.io/iSEEWorkshop2019/)
{{< fa person-chalkboard >}} **Slides:** [HTML](https://isee.github.io/iSEEWorkshop2019Slides/)
## Books
### iSEE The Book
{{< fa book >}} <https://isee.github.io/iSEETheBook/>
This new book (work in progress) aims to compile essential knowledge about *iSEE*, catering for three main groups of users:
- End users interacting with the graphical user interface in their web browser.
- Developers of web-applications using *iSEE* to showcase data sets.
- Developers of extensions contributing new functionality and packages to the *iSEE* ecosystem.
### Extending iSEE
{{< fa book >}} <https://isee.github.io/iSEE-book/>
This book describes how to use the *iSEE* application programming interface (API) to develop new panel types for custom visualizations.
The book also presents case studies to illustrate the development process for a variety of custom panels.
## Videos
Our [{{< fa brands youtube >}} YouTube channel][isee-youtube] includes short videos showcasing *iSEE* apps in action.
Featured videos and playlists are listed on [this page](/videos.qmd).
<!--
Other resources:
- <https://github.com/iSEE/iSEE_instances>
-->
[isee-youtube]: https://www.youtube.com/@iSEEdevelopers