Skip to content

Commit

Permalink
Adding a list of dependencies to the README.
Browse files Browse the repository at this point in the history
  • Loading branch information
finnkuusisto authored Jul 15, 2020
1 parent ca848c7 commit b9b5f2f
Showing 1 changed file with 16 additions and 3 deletions.
19 changes: 16 additions & 3 deletions README.md
Original file line number Diff line number Diff line change
Expand Up @@ -2,18 +2,31 @@

The web application is freely available for use at [https://www.kinderminer.org](https://www.kinderminer.org).


This repository hosts the code for the web application.


### Brief Description

Many important scientific discoveries require lengthy experimental processes of trial and error and could benefit from intelligent prioritization based on deep domain understanding.
While exponential growth in the scientific literature makes it difficult to keep current in even a single domain, that same rapid growth in literature also presents an opportunity for automated extraction of knowledge via text mining.
We have developed a web application implementation of the KinderMiner algorithm for proposing ranked associations between a list of target terms and a key phrase.
Any key phrase and target term list can be used for biomedical inquiry.
We built the web application around a text database derived from PubMed.
We built the web application around a text index derived from PubMed.
It is the first publicly available implementation of the algorithm, is fast and easy to use, and includes an interactive analysis tool.
The KinderMiner web application is a public resource offering scientists a cohesive summary of what is currently known about a particular topic within the literature, and helping them to prioritize experiments around that topic.
It performs comparably or better to similar state-of-the-art text mining tools, is more flexible, and can be applied to any biomedical topic of interest.
It is also continually improving with quarterly updates to the underlying text database and through response to suggestions from the community.
It is also continually improving with quarterly updates to the underlying text index and through response to suggestions from the community.


This repository hosts the code for the web application.
### Dependencies

* Python 3.7.2
* Flask 1.0.2
* Flask-MySQL 1.4.0
* PyMySQL 0.9.3
* MariaDB 5.5.65
* SciPy 1.2.0
* Postmarker 0.13.0

The code for building the backend PubMed text index is available at [https://github.com/iross/km_indexer](https://github.com/iross/km_indexer).

0 comments on commit b9b5f2f

Please sign in to comment.