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New blog post: 2025 Statistical Genetics Workshop by Kyra Feuer#69

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peterjc merged 3 commits into
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May 5, 2025
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New blog post: 2025 Statistical Genetics Workshop by Kyra Feuer#69
peterjc merged 3 commits into
OBF:mainfrom
Kyra-Feuer:main

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@Kyra-Feuer

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@peterjc

peterjc commented Apr 30, 2025

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Nice pictures - I look forward to the text (on this same pull request please).

@Kyra-Feuer

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Sorry, how do I do that? xD

@peterjc

peterjc commented Apr 30, 2025

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On the website? Go to https://github.com/Kyra-Feuer/OBF.github.io/tree/main/content/posts which is the relevant directory on your branch, and top-right look for the "Add file" button. You can upload the file, or since this is plain text copy-and-paste.

@Kyra-Feuer

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Does it look right now?

- event-fellowship
- travel-fellowship
cover:
image: /wp-content/uploads/YYYY/YYYY-MM-DD-cover-image-name.png

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Does one of your images make sense as a cover image? If not, remove this line

- travel-fellowship
cover:
image: /wp-content/uploads/YYYY/YYYY-MM-DD-cover-image-name.png
alt: "Image description for accessibility"

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Remove this line too - or if you have a suitable image, add a description here.


Thanks to the Event Fellowship from Open Bioinformatics Foundation (OBF), I was privileged to attend the 2025 International Statistical Genetics Workshop (ISG). ISG is an intensive, week-long workshop held annually in Boulder, Colorado that provides hands-on training in the principles and application of over a dozen open-access bioinformatics tools for analysis of genomic data. This workshop has been running since 1987 and boasts a faculty of world-renowned experts in statistical genetics from around the globe. The curriculum switches annually between family-based and population-based genetic studies. The focus this year was on the theory, performance, and interpretation of genome-wide association studies (GWAS) and their downstream analyses.

![The workshop was a combination of lectures and collaborative hands-on practicals](/img/2025/2025-04-30-Kyra-Feuer-01.jpg)

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@gedankenstuecke Should this text be the "alt text" describing the image (for visually impaired readers etc)?

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Indeed, that should be the alt text for screen readers!

@peterjc

peterjc commented Apr 30, 2025

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@gedankenstuecke Am I right in thinking that to preview the post we need to run Hugo on our own computer?

@gedankenstuecke

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Yes, I fear so far we don't have a CI pipeline that would build previews somewhere else. I think in theory that's possible but not by just using GH actions iirc!

@peterjc

peterjc commented Apr 30, 2025

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[This is off topic, but I wonder if dropping the static/ bit of our paths is possible with Hugo, or if we can fake that with a symlink img/ -> static/img/, so that the GitHub rendering shows the images?]

@nlharris

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Thank you, @peterjc and @gedankenstuecke for helping Kyra with this process, and thank you, @Kyra-Feuer, for being our guinea pig - this is the first time someone outside of our core team has tried to make a new blog post on our new website (launched just a few months ago).

@Kyra-Feuer

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Happy to help! @peterjc I think it would be really helpful for the preview rendering to show the images, that way we can tell if we are formatting the captions correctly. I'm not entirely sure I did it right :)

I just updated the file, any further suggestions?

@peterjc

peterjc commented May 5, 2025

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I ran into some issues running Hugo locally on an older Intel Mac (see #70), but found a workaround of sorts to preview the pages in WezTerm (an alternative terminal which includes image protocol support). I used the penultimate release of mdcat https://github.com/swsnr/mdcat/releases/tag/mdcat-2.7.0 (which has Apple Intel binaries), and piped the blog post via sed to adjust the image URLs:

sed "s#(/img/#(static/img/#g" content/posts/2025-04-30-Kyra-Feuer-2025-International-Statistical-Genetics-Workshop.md | ~/Downloads/mdcat-2.7.0-x86_64-apple-darwin/mdcat

This worked nicely:

Screenshot 2025-05-05 at 11 56 41

...

Screenshot 2025-05-05 at 12 00 34

Sadly mdcat is not longer being developed

@peterjc peterjc merged commit 4209bfd into OBF:main May 5, 2025
@peterjc

peterjc commented May 5, 2025

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Merged, thank you! This should be live shortly...

@peterjc

peterjc commented May 5, 2025

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Ah - still had draft: true, I'll change that now...

peterjc added a commit that referenced this pull request May 5, 2025
I missed this when merging #69
@peterjc

peterjc commented May 5, 2025

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Live at https://www.open-bio.org/2025/04/30/2025-04-30-Kyra-Feuer-2025-International-Statistical-Genetics-Workshop/ - thank you!

I think there's something duplicating the title though...

peterjc added a commit that referenced this pull request May 5, 2025
@peterjc

peterjc commented May 5, 2025

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I was perhaps rash in merging this without seeing it via Hugo. In hindsight, we're missing the suggested opening paragraph in italics - from the template:

**_The_** [**_Open Bioinformatics Foundation (OBF) Event Fellowship program_**](/travel-awards) **_aims to promote diverse participation at events promoting open-source bioinformatics software development and open science practices in the biological research community. [FULL NAME],_** _**a [YOUR POSITION, e.g., MSc/PhD researcher] at**_ _**[YOUR INSTITUTION]**_, **_was awarded an OBF Event Fellowship to attend_** _**the**_ **_[EVENT NAME](EVENT URL)_**.

See e.g. https://www.open-bio.org/2025/01/07/jacqueline-wahura-ento24-experience/

This isn't a hard suggestion, but it does make sure your name as the post author is obvious. Perhaps we should add something like this at the end of the template too:

[FULL NAME], [YOUR POSITION, e.g., MSc/PhD researcher] at [YOUR INSTITUTION].

Which would you (@Kyra-Feuer) prefer to add here (or both)? You can make another PR to edit the page, or just comment here with the wording.

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4 participants