User:Karsten Theis/Sandbox 2: Difference between revisions

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Proteopedia is the 3D encyclopedia of proteins and other biological molecules. This is the directory of help pages for visitors and for registered users.


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===<i class="fas fa-directions"></i> Navigating Proteopedia===
Proteopedia is organized like an encyclopedia, with entries (also called pages or articles) on different topics. If you already know the topic you are interested in, you can search for relevant entries using the '''search box on the left''' side of the page. For help, go to [[Help:Searching]]. You can also browse the entries, starting with the suggestions on the [[Main Page]] or the table of contents or the structure index available in the navigation box on the left. Entries have links to other entries (if you right-click them, the current entry will stay available and the linked entry will open in a new tab). This is a way to browse entries on related topics.
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===<i class="fas fa-glasses"></i> Reading and viewing entries===
The special feature of Proteopedia entries are the interactive 3D representations of molecules viewable on most pages. They appear in a window integrated into the page (often called "Jmol window"). As you read through the text of an entry, you will find "green links". When you click on them, you stay on the same page but the interactive 3D scene. To learn how to get the most out of the interactive 3D scenes, reference the [[Help:Viewing pages|Viewing guide]] and the cheat sheet that comes with it. If you encounter technical terms you are unfamiliar with, try searching for them to learn more about them (the [[About Macromolecular Structure]] entry is a good start.
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===<i class="fas fa-user-clock"></i> Who wrote the entry when?===
The section headed "Proteopedia Page Contributors and Editors" (on the bottom of the entry) lists all authors of the entry. If you are interested to learn who wrote what and when the entry was last updated, go to the history tab. Occasionally, the discussion tab contains information about how the entry was created or suggestions for improvement.
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===<i class="fas fa-id-card"></i> Becoming a registered user on Proteopedia===
To edit pages or create new ones, you need an account. At the top right of each page, there is a link to login in or request an account. With an account, you can edit pages and create new ones. You will also have a user page to introduce yourself, and access to sandboxes where you can try out creating content.
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===<i class="fas fa-user-edit"></i> For authors: contributing content===
To get started, read [[Help:Getting Started in Proteopedia]], or watch the videos linked there. You can '''start editing in a sandbox''' (see [[Help:Sandboxes]]). Before reusing content from others, consult [[Proteopedia:Guidelines for Ethical Writing]] for ethical aspects, and [[Help:Editing#Citing_Literature_References]] for formatting references. The text on Proteopedia has an open license that encourages remixing with attribution, see [[Remixing]]. For some suggestions how to improve the quality of a page, see [[Proteopedia:How to Make a Page]].
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===<i class="fas fa-cubes"></i> For authors: creating 3D scenes===
To show a 3D scene, you need structural data (typically from the protein database PDB) and need to decide how to show it. This is described in [[Proteopedia:DIY:Scenes]]. The 3D scenes are created and previewed using the [[Scene authoring tools]]. If you want to show a structure not in the PDB, you have to upload the structure first ([[Help:Uploading molecules]]). Tips how to make 3D scenes that have a lot of information yet are easy to understand is available at [[Proteopedia:How to Make a Scene]].
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=== <i class="fas fa-film"></i> For authors: multimedia===
You can insert static images or animations directly in the text, embed videos, and integrate different data in 3D scenes, see [[Help:Multimedia]]. Proteopedia hosts images as long as they come with the appropriate license (see [[Proteopedia:Terms of Service]]). For uploading images, see [[Proteopedia:Video_Guide#Video_5:_Uploading_an_image_or_file_and_adding_an_image_to_a_page|Video Guide 5]]. For help on formatting the image within the page, see [http://en.wikipedia.org/wiki/Help:Wiki_markup#Images Wiki markup: Images] or for even more detail, [http://en.wikipedia.org/wiki/Wikipedia:Extended_image_syntax Wikipedia:Extended image syntax].
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===<i class="fas fa-atom"></i> For authors: advanced topics===
Advanced topics are discussed in [[Proteopedia:Cookbook]], e.g. integrated quizzes (for details, see [[Help:Quiz]]), how to construct a URL showing a specific scene, and inserting interactive buttons (for details, see [[Jmol/Interactivity]]). Consult [[Help:Jmol]] for advanced 3D scenes. To look under the hood of other pages, use the "edit this page" tab. [[Proteopedia:DIY:Templates|Templates]  and [[Proteopedia:Macros|macros]] can help to achieve effects with less typing.
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=== <i class="fas fa-chalkboard-teacher"></i> For teachers===
For Teaching with Proteopedia, a good starting point is [[Help: Teaching with Proteopedia]]. Also consult [[Teaching_Scenes, Tutorials, and Educators' Pages]] and if applicable, [[High school teachers' resources]]. Students might benefit from studying [[Proteopedia:Primer]] and [[Media:Proteopedia tutorial step by step.pdf]]. If you need a space for students to draft pages, reserve some sandboxes for your students here.
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===<i class="fas fa-question"></i> More help? Contact us===
If you encounter error messages, consult [[Help:Errors]], feel free to [[Special:Contact|contact us directly]], or subscribe to, and post questions on the [[Proteopedia:Email list]]. As a registered user, you can also contact other users (e.g. if you have a question about a page they contributed to) by going to their user page and clicking on "contact this user" on the left side panel.
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== Before you edit this help directory ==
There are ten sections, and all but two have a link to a "first-tier" help page. If there are other pages that offer help in the section, first consider adding a link into the first-tier page, making it available that way (as a second-tier help page). Or, after consulting at least one other person, make the new page the first-tier help page, and link to the former first-tier help page there. This way, the layout of the directory will not expand out of proportion.
Here is a list of the section and the current first-tier help page:
# Navigating: [[Special:Search]]
# Reading: [[Viewing guide]]
# Authors and history: n/a (elements built into pages)
# Registering as user: n/a (menu above pages)
# Contributing content: [[Help:Getting Started in Proteopedia]]
# 3D scenes: [[Proteopedia:DIY:Scenes]]
# Multimedia: [[Help:Multimedia]]
# Advanced Authoring: [[Proteopedia:Cookbook]]
# Teaching: [[Help: Teaching with Proteopedia]]
# Contact us: [[Help: Contact Us]]
Use the [[Special:Allpages]] to find all pages [https://proteopedia.org/wiki/index.php?title=Special%3AAllpages&from=Help%3A&namespace=0 starting with Help:] and [https://proteopedia.org/wiki/index.php?title=Special%3AAllpages&from=&namespace=4 starting with Proteopedia:]

Latest revision as of 18:49, 5 May 2024

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