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src/content/events/2023-05-09_CEPLAS-StartYourARC-Series.md
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| --- | ||
| title: CEPLAS Start Your ARC Workshop Series | ||
| category: Training | ||
| excerpt: 'Learn how to move your datasets into ARCs, share them via the DataHUB, and annotate them with metadata.' | ||
| when: | ||
| - | ||
| start: 2023-05-09T10:00:00 | ||
| end: 2023-05-09T11:30:00 | ||
| - | ||
| start: 2023-05-31T10:00:00 | ||
| end: 2023-05-31T11:30:00 | ||
| - | ||
| start: 2023-06-14T10:00:00 | ||
| end: 2023-06-14T11:30:00 | ||
| mode: On-site | ||
| audience: [Users] | ||
| location: | ||
| short: HHU, ZSL 22.07, Room U1.025 | ||
| address: HHU, ZSL 22.07, Room U1.025 | ||
| url: https://www.ceplas.eu/en/contact/how-to-get-there | ||
| tutors: | ||
| - Dominik Brilhaus (CEPLAS) | ||
| organizer: | ||
| name: Dominik Brilhaus | ||
| affiliation: CEPLAS Data | ||
| url: https://www.ceplas.eu/en/research/data-science-and-data-management | ||
| registration: | ||
| description: This is a three-session event. Open for everyone. PhD-students, postdocs, group leaders, (lab) data managers | ||
| seats: 20 | ||
| url: https://hhu2020.fra1.qualtrics.com/jfe/form/SV_9ozJXlz7xo0iSlE | ||
| --- | ||
|
|
||
| ## About | ||
|
|
||
| You have probably heard about DataPLANT’s Annotated Research Context (ARC). This three-session workshop series demonstrates the ARC concept and introduces how to build a first ARC for your own research project and annotate the data in your ARC. | ||
|
|
||
| ## Content | ||
|
|
||
| Session 1: Introduction to the ARC (demo) | ||
| Session 2: Build your ARC | ||
| Session 3: Annotate your data | ||
|
|
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| 💡 We will try to record and share sessions with slides afterwards | ||
| 👩💻 Sessions 2 and 3 are hands-on and require a laptop | ||
|
|
||
| ## Teaching Materials | ||
|
|
||
| Materials are shared via DataPLANT [Knowledge Base](https://nfdi4plants.org/nfdi4plants.knowledgebase/docs/teaching-materials/events-2023/2023-05-09_CEPLAS-StartYourARC-Series/index.html). |
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| --- | ||
| title: "ARC Club HHU" | ||
| excerpt: "a two-day adventure to prepare your lab for the ARC universe" | ||
| category: Training | ||
| mode: On-site | ||
| audience: [Users] | ||
| when: | ||
| start: 2023-08-17T09:00:00 | ||
| end: 2023-08-18T17:00:00 | ||
| location: | ||
| short: HHU | ||
| address: HHU, ZSL 22.07, Room U1.21 | ||
| url: https://www.ceplas.eu/en/contact/how-to-get-there | ||
| tutors: | ||
| - Dominik Brilhaus (CEPLAS) | ||
| organizer: | ||
| name: Dominik Brilhaus | ||
| affiliation: CEPLAS Data | ||
| url: https://www.ceplas.eu/en/research/data-science-and-data-management | ||
| image: ~/assets/images/events/ARCClub.drawio.png | ||
| --- | ||
|
|
||
| ## Setting | ||
|
|
||
| - Good internet connection | ||
| - Isolated from lab // office // daily duties | ||
| - Access to the data to be ARCified | ||
| (file share, hard disks) | ||
| - Agile, communicative, collaborative, positive | ||
| - Technical *ad-hoc* support by DataPLANT | ||
|
|
||
| ## Goals | ||
|
|
||
| - Move existing datasets into ARCs | ||
| - Share them via the DataHUB | ||
| - First few steps into ARCs | ||
| - Data users can pick them up from there | ||
|
|
||
| ## Preparation | ||
|
|
||
| - DataHUB user accounts https://register.nfdi4plants.org/ | ||
| - DataHUB user group: https://git.nfdi4plants.org/hhu-plant-biochemistry | ||
| - Installation | ||
| - [ARCitect](https://nfdi4plants.org/nfdi4plants.knowledgebase/docs/ARCitect-Manual/index.html) | ||
| - [Swate](https://nfdi4plants.org/nfdi4plants.knowledgebase/docs/SwateManual/Docs01-Installing-Swate.html) | ||
| - [ARC Commander](https://nfdi4plants.org/nfdi4plants.knowledgebase/docs/ArcCommanderManual/index-setup.html) | ||
| - List of projects to be ARCified | ||
|
|
||
| ## Why you want to join the **ARC Club** | ||
|
|
||
| - You've needed data before, now is your chance to make data available | ||
| - Your contribution to the ARC will be visible | ||
| - Food :pizza: | ||
| - Drinks :beers: | ||
| - After-ARCathon Party 🥳 | ||
|
|
||
| ## Rough Schedule | ||
|
|
||
| ### Day 1 | ||
|
|
||
| Time | Content | ||
| --- | --- | ||
| Morning | Tech-check (Installation) - Intro ARC, ARC Commander & DataHUB - hands-on with dummy data | ||
| Lunch | *tbd* :hamburger: | ||
| Afternoon | Discuss / assign projects - Start creating ARCs | ||
| Evening | *tbd* :tropical_drink: | ||
|
|
||
| ### Day 2 | ||
|
|
||
| Time | Content | ||
| --- | --- | ||
| Morning | Present project status - Intro Swate - hands-on with dummy data | ||
| Lunch | *tbd* :pizza: | ||
| Afternoon | Annotate experimental data - Start creating ARCs | ||
| Evening | *tbd* :beers: | ||
|
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| ## Volunteers | ||
|
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||
| - coders | ||
| - data handlers | ||
| - data users | ||
| - ARC early adopters | ||
| - long-term lab-associates |
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| --- | ||
| title: MibiNet/CEPLAS Start Your ARC Workshop | ||
| date: 2023-09-20 | ||
| category: Training | ||
| excerpt: 'This two-session workshop series demonstrates the ARC concept and introduces how to build a first ARC for your own research project and annotate the data in your ARC.' | ||
| when: | ||
| - | ||
| start: 2024-09-21T09:30:00 | ||
| end: 2024-09-21T15:30:00 | ||
| - | ||
| start: 2024-09-28T09:30:00 | ||
| end: 2024-09-28T15:30:00 | ||
| mode: On-site | ||
| audience: [Users] | ||
| location: | ||
| short: HHU, ZSL 22.07, Room U1.021 | ||
| address: HHU, ZSL 22.07, Room U1.021 | ||
| url: https://www.ceplas.eu/en/contact/how-to-get-there | ||
| tutors: | ||
| - Dominik Brilhaus (<a href="https://www.ceplas.eu/en/research/data-science-and-data-management">CEPLAS Data</a>) | ||
| - Sabrina Zander (<a href="https://www.sfb1535.hhu.de/projects/research-area-z/z03">MibiNet</a>) | ||
| organizer: | ||
| name: Sabrina Zander | ||
| affiliation: MibiNet | ||
| url: https://www.sfb1535.hhu.de/projects/research-area-z/z03 | ||
| registration: | ||
| description: This is a three-session event. Open for everyone. PhD-students, postdocs, group leaders, (lab) data managers | ||
| url: https://pad.hhu.de/Aem023liTWKyfPysU0H8Gw?both | ||
| deadline: 2023-07-25 | ||
| seats: 20 | ||
| --- | ||
|
|
||
| # About | ||
|
|
||
| You have probably heard about DataPLANT's **[Annotated Research Context](https://nfdi4plants.org/content/learn-more/annotated-research-context.html)** (ARC). This two-session workshop series demonstrates the ARC concept and introduces how to build a first ARC for your own research project and annotate the data in your ARC. | ||
|
|
||
| # Preparation ! | ||
|
|
||
| 1. For the **hands-on** blocks you will need a **laptop with functioning wifi access on HHU campus** (e.g. [Eduroam](https://www.zim.hhu.de/servicekatalog/netze/wlan)) | ||
| 2. Please follow the [preparation slides](https://nfdi4plants.org/nfdi4plants.knowledgebase/docs/teaching-materials/disseminations/2023-09-MibiNet-CEPLAS-StartYourARC/index.html) to setup required tools on your laptop | ||
| 3. We offer an online tech-check meeting on **September 18th at 1pm**: [Meeting link](https://hhu.webex.com/hhu-en/j.php?MTID=m7d5f61cc9da2036cae1ae8926b14b62f) | ||
| - This is optional to help you with above setup | ||
| - If you run into issues with tool setup, but cannot make it to the tech-check, please come to the workshop half an hour earlier. | ||
| 4. :coffee: **Please bring your own coffee mug!** We will serve coffee and tea, but do not have a dish washer. :smiley: | ||
|
|
||
| ## Teaching Materials | ||
|
|
||
| Materials are shared via DataPLANT [Knowledge Base](https://nfdi4plants.org/nfdi4plants.knowledgebase/docs/teaching-materials/events-2023/2023-09-MibiNet-CEPLAS-StartYourARC/index.html). |
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| --- | ||
| title: CSCS Start Your ARC Workshop | ||
| excerpt: "This two-day workshop demonstrates the concept of ARC and introduces how to build a first ARC for your own research project." | ||
| category: Webinar | ||
| mode: Online | ||
| audience: [Users] | ||
| when: | ||
| - | ||
| start: 2023-10-05T13:00:00 | ||
| end: 2023-10-05T17:00:00 | ||
| - | ||
| start: 2023-10-11T13:00:00 | ||
| end: 2023-10-11T17:00:00 | ||
| location: | ||
| short: WebEx | ||
| url: https://hhu.webex.com/hhu-en/j.php?MTID=m8469363c6758c7556096e3704df51885 | ||
| tutors: | ||
| - Dominik Brilhaus (CEPLAS) | ||
| organizer: | ||
| name: Dominik Brilhaus | ||
| affiliation: CEPLAS Data | ||
| url: https://www.ceplas.eu/en/research/data-science-and-data-management | ||
| registration: | ||
| description: Open for members of CSCS. | ||
| url: https://forms.office.com/e/7vhfj5i2kX | ||
| deadline: 2023-09-25 | ||
| --- | ||
|
|
||
|
|
||
| # About | ||
|
|
||
| This two-day workshop demonstrates the concept of **[Annotated Research Context (ARC)](https://nfdi4plants.org/content/learn-more/annotated-research-context.html)** and introduces how to build a first ARC for your own research project. You will also learn to annotate the data within your ARC. | ||
|
|
||
| ## Teaching Materials | ||
|
|
||
| Materials are shared via DataPLANT [Knowledge Base](https://nfdi4plants.org/nfdi4plants.knowledgebase/docs/teaching-materials/events-2023/2023-10-CSCS-CEPLAS-StartYourARC/index.html). |
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| Original file line number | Diff line number | Diff line change |
|---|---|---|
| @@ -0,0 +1,113 @@ | ||
| --- | ||
| title: "CEPLAS ARC Clubs" | ||
| excerpt: "a two-day adventure to prepare your lab for the ARC universe" | ||
| category: Training | ||
| mode: On-site | ||
| audience: [Users] | ||
| when: | ||
| start: 2023-11-15T09:00:00 | ||
| end: 2023-11-15T17:00:00 | ||
| location: | ||
| short: HHU, UoC | ||
| address: HHU, UoC | ||
| tutors: | ||
| - Dominik Brilhaus (CEPLAS) | ||
| organizer: | ||
| name: Dominik Brilhaus | ||
| affiliation: CEPLAS Data | ||
| url: https://www.ceplas.eu/en/research/data-science-and-data-management | ||
| image: ~/assets/images/events/ARCClub.drawio.png | ||
| --- | ||
|
|
||
|
|
||
| ## Goals | ||
|
|
||
| - Move existing datasets into [ARCs](https://nfdi4plants.org/nfdi4plants.knowledgebase/docs/implementation/AnnotatedResearchContext.html) | ||
| - Share them via the [DataHUB](https://nfdi4plants.org/nfdi4plants.knowledgebase/docs/implementation/DataHub.html) | ||
| - This can be done privately, group-internally or publicly | ||
| - First few steps into the ARC ecosystem | ||
| - We will not produce "perfect" or "final" ARCs | ||
| - You or collaborators can pick them up from there in the future | ||
|
|
||
| ## Setting | ||
|
|
||
| - Good internet connection | ||
| - Ideally isolated from lab // office // daily duties | ||
| - Access to the data to be ARCified (file share, hard disks, cloud, ...) | ||
| - Agile, communicative, collaborative, positive | ||
| - Technical *ad-hoc* support by DataPLANT | ||
|
|
||
| ## Participants | ||
|
|
||
| This event benefits from a good mix of participants from you lab: | ||
|
|
||
| - wet lab biologists | ||
| - dry lab biologists, coders | ||
| - data handlers, data users | ||
| - long-term lab-associates with a good project overview | ||
|
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| Group size: 5-10 (for the interactive parts) | ||
|
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| ## Tentative agenda | ||
|
|
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| We will mostly introduce concepts and tools in the mornings. | ||
| The afternoons focus on interactive parts. Here you have the chance to use the tools with your own data while we are there to help. | ||
|
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| **Day 1** | ||
|
|
||
| Morning | ||
| - Intro to ARC and demo | ||
| - ARCitect Hands-on | ||
|
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| Afternoon | ||
| - Create your ARCs | ||
| - DataHUB Features | ||
|
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||
| **Day 2** | ||
|
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| Morning | ||
| - ARC recap session | ||
| - ISA and Metadata | ||
| - Swate Hands-on | ||
|
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| Afternoon | ||
| - Annotate data in your ARC | ||
| - Wrap-up | ||
|
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| ## Checklist for participants | ||
|
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| Please prepare the following **before the workshop**. | ||
|
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| - Bring your laptop / computer | ||
| - Bring datasets to be ARCified | ||
| - Sign up for a DataHUB user account https://register.nfdi4plants.org/ | ||
| - Please add your `Project/consortium` (e.g. CEPLAS, SFB, TRR) and choose the role `Guest` | ||
| - Install <a href="https://nfdi4plants.org/nfdi4plants.knowledgebase/docs/ARCitect-Manual/index.html" target="_blank">ARCitect</a> | ||
| - Install <a href="https://nfdi4plants.org/nfdi4plants.knowledgebase/docs/SwateManual/Docs01-Installing-Swate.html" target="_blank">Swate</a> | ||
|
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| :bulb: Not all installations are perfectly straight-forward. We will start the first day with a tech-check to make sure your machine is up and running. | ||
|
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| ### Optional (for coders or trouble-shooting) | ||
|
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||
| - Find the command-line on your machine | ||
| - On Windows: Enter `powershell` or `cmd` into the explorer path | ||
| - On MacOS: Search `terminal` via spotlight (⌘ + ␣) or navigate to `Applications` -> `Utilities` -> `Terminal` | ||
| - :bulb: No worries, we will not be using this a lot during the workshop. It's more for setup and trouble-shooting. | ||
| - Install <a href="https://git-scm.com/downloads" target="_blank">Git</a> and <a href="https://git-lfs.github.com/" target="_blank">Git LFS</a> | ||
| - Git LFS may already be installed with your Git installation (at least on Windows) | ||
| - For macOS we recommend to install via homebrew as described on the site above | ||
| - Install <a href="https://nfdi4plants.org/nfdi4plants.knowledgebase/docs/ArcCommanderManual/index-setup.html" target="_blank">ARC Commander</a> | ||
|
|
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| ## Checklist for co-organizers (from lab) | ||
|
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||
| To make this as smooth as possible and create an enjoyable atmosphere, we ideally need | ||
|
|
||
| - a room with good internet connection | ||
| - Wifi (via Eduroam?) | ||
| - or LAN sockets (might require to setup LAN network with local computing center) | ||
| - (optional) LAN cables | ||
| - multi-outlet power strips | ||
| - a list of putative datasets or projects to be ARCified | ||
| - discuss with the PI or participants | ||
| - a <a href="https://nfdi4plants.org/nfdi4plants.knowledgebase/docs/DataHUB-Manual/datahub-CreateGroup.html" target="_blank">DataHUB user group</a> for your lab | ||
| - (optional) invite members from your lab |
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