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lubianat / ann

A repository for brainstorming and prototyping ideas related to the eLifeSprint project Annotate them all (https://sprint.elifesciences.org/annotate-them-all/)
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Prototype the platform as a ShinyApp #11

Closed lubianat closed 3 years ago

lubianat commented 4 years ago

Even though R might not be the industry standard, it is very used in bioinformatics and the language that I'm most used to.

Even though it would be better to have a final version in some more powerful web format, maybe a ShinyApp is the most inclusive way to go.

What is your idea? Build a prototype of Annotate Them All in R

What can we do at the Sprint? I believe we can make a prototype that gets an abstract, and allows very basic annotation of the text in it.

It could pull an abstract from Europe PMC API. Then the user could (in a minimum viable product) to manually enter the text to be annotated and its position and match with a Wikidata QID.

What skills does it require? R programming, experience with Shiny Apps.

lubianat commented 4 years ago

This is an example of a customer directed user interface based in R https://app.syrf.org.uk/home .

It is also developed to annotate scientific articles, but focused on extracting specific informations for systematic reviews.

lubianat commented 4 years ago

Here is a shiny app project that dealt with marking texts up:

https://github.com/beyond2013/dynamicContent

lubianat commented 4 years ago

Here is a shiny app for displaying text annotations: https://francojc.github.io/2015/08/15/generating-annotated-text-in-shiny/

lubianat commented 3 years ago

I'll close the issue, as this line of work is likely not going forward. Might reopen if needed in the future.