Add new references - Githubissues

cytodata / awesome-cytodata

A curated list of awesome cytodata resources

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Add new references #12

Closed koalive closed 2 years ago

koalive commented 2 years ago

Hi! I added quite a few references and I'd be happy to get feedback. I believe these additions would be relevant for the community, but I also stumbled upon a few articles for which I was not sure they would meet the repository criteria (see #11). If by any chance you see something you know and think it's awesome, we could include it (either with this PR or later). Cheers.

koalive commented 2 years ago

PS: There's one link to a collection of articles that I classified as "Review", hope it's good enough.

@jccaicedo do you think we should include DeepProfiler in the Software section or is it too early?

gwaybio commented 2 years ago

LGTM!

lopaavol commented 2 years ago

Here are some comments:

Is HPA raw images downloadable from their site? Earlier those weren't available and I could not quickly find the images now either.
Do we want to include preprints? I mean in the context of Awesome list. Not all papers, especially ML methodological papers, ever make their way into any journal or conference publication, and a paper can be awesome even if it is under review. Just wanted to raise a point if we draw the line somewhere.
Deep learning in microscopy collection: I would maybe leave this out from Awesome list as it is not a review paper. Maybe the awesome method papers from that collection could be added separately.
Later we might need to add some categories in "Methods"

koalive commented 2 years ago

Thanks for the feedback!

I added a better link for the HPA. There's a server to download raw images but I only found the information in a repo from their Kaggle challenge. The trick also works with more recent releases of the data.
I'm all for listing preprints, even if it probably requires to be even more careful to claim that they're relevant. A few are already listed and this PR would add a few more.
I added a "Collections" section for it (and added another link). I like that it offers a good outlook of the ongoing research and provides a way to dive into more specific topics. Let's say I find these lists awesome, rather than all the individual articles. Would that be OK?

Cheers.