DelVG meta study

This is the code for the analyses performed in the publication ().

setup

Before running the with different datasets the repository needs to be set up accordingly.

1. create a file .config.json in the root of the repository with the following structure:

   {
    "DATAPATH": "/path/to/datasets",
    "RESULTSPATH": "/path/to/results"
   }
   

2. Put your data in the folder that is defined in DATAPATH. Each each publication should get a new folder and in this folder each SRA entry is a single .csv file. To generate datasets the DI identification pipeline by Alnaji et al. can be used.
3. Install all dependencies. This can be done by conda using the following command:

   conda env create --file=env.yml