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Quality Assessment of Biomedical Metadata Using Topic Modelling
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README.md

Metadata Unsupervised Assessment

In this project we carry out a quality assessment of Gene Expression Omnibus GEO dataset. We first create features of the dataset using topic modeling, then we create the feature matrix, by matching the terms present in the dataset.

Getting Started

Following tools should be installed in your computer:

  • Jupyter Notebook
  • Python 2.7 and newer versions

Prerequisites

Accessing with Docker

  1. Clone this repository
git clone https://github.com/MaastrichtU-IDS/metadata-unsupervised-assessment.git
cd metadata-unsupervised-assessment
  1. Build a Docker image and run (Linux and macOS)
docker build -t turi_mua .
docker run -it -p 8888:8888 -v "$PWD":/home/jovyan --name=meta_turi turi_mua
  1. Access the service (token prompts in the terminal)

    http://0.0.0.0:8888/?token=

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