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paperscape / paperscape-mapclient

Browser client for the Paperscape map
http://paperscape.org
MIT License
101 stars 6 forks source link

extend to PubMed #8

Open foobar0112 opened 6 years ago

foobar0112 commented 6 years ago

[repost of a comment in the blog]

pubmed

Are there any new ideas about this?

I love paperscape, and also would like to apply this great idea on PubMed, or maybe PubMed Central (4.8 Million full articles instead of 27.3 abstracts like in PubMed).

What would be in your opinion the best point to start therefor?

dpgeorge commented 6 years ago

Are there any new ideas about this?

No. We have not had the time to extend Paperscape in the past year.

What would be in your opinion the best point to start therefor?

First try generating a map using our existing data. Then understand how to import your own data, and then map it.

Sorry we can't be more helpful here.

fpestana-git commented 3 years ago

@foobar0112, It should be highly possible.

Basically most of the metadata for pubmed articles is available since pubmed allows to download xml files with relevant information (references, etc) for most of the recent papers (they have a tool for batch downloading the files). The articles that do not have references annotated in the xml would have to be manually annotated.

The number of times each article is cited and other things should be calculated quite easily.

I was able to extract that information into csv files which I guess can be loaded into the database.

Now I have been trying to generate a map using all the default data and database schemes but I am having trouble connecting to the MySQL database.