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Link to image publication & analysis checklists #303
Description
How could the content be improved?
This paper dropped into my inbox this morning: Community-developed checklists for publishing images and image analyses (hat-tip: @schmiedc). They seem like pretty helpful resources to me, that we could share with learners to encourage good practice while they are taking first steps in image processing/analysis.
Which part of the content does your suggestion apply to?
This is a good question! I suppose linking out to a resource like this would make most sense towards the end of the lesson, but perhaps a link to the checklist for image capture & publication could be placed earlier on, especially if we add something about image capture pipeline to address #212
Activity
tobyhodges commentedon Oct 13, 2023
pinging @datacarpentry/curriculum-advisors-image in case any of you want to share your perspective on this?
mkcor commentedon Nov 25, 2023
Wow! I want to tell the entire world about this paper!! Thank you for bringing it to our attention, @tobyhodges.
I assume that @joshmoore must be well aware of this work? Thank you for leading this community effort, @schmiedc! I'll continue this conversation on the forum.
Right. I would even support creating a (short) episode about best practices for publishing images and image analyses! I'll draw a parallel with the Licensing episode in the SWC Git lesson: When teaching this lesson, I would never have time to reach this particular episode, but I would say a few words about its content and refer the learners to the online material.
I've read the paper from beginning to end and, if I'm not mistaken, it doesn't cover best practices for image capture; for this, the authors point to existing resources (at least in the field of light microscopy): "Existing resources developed by scientists can help researchers to navigate designing microscopy experiments1,2,3 and cover aspects such as sample preparation1, microscope usage1,4, method reporting5,6,7,8 and fluorophore and filter usage9,10."
So, as mentioned above, I think that linking to the checklist for image publication makes more sense towards the end of the lesson.
marcodallavecchia commentedon Jun 6, 2025
I do agree that this publication had a mayor impact in the field, albeit still mainly in light microscopy and not fully general to image processing as a whole.
We think it is definitely worth to add the publication to a resource Further Reading section, as mentioned in #144. But we think creating a new section on best practices, while useful, might be difficult to generalize and avoid field-specific needs (and keeping it short as well).
marcodallavecchia commentedon Mar 25, 2026
Closed by #348