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README.md

research_snpdb

Script to load SNP and locus data from tab-delimited files into MySQL and MongoDB for performance comparisons.

Prerequistites:

  • Python
  • MySQL
    • mysql.connector
  • MongoDB
    • pymongo
  • Tab-delimited data files

presentation

http://www.wadeschulz.com/portfolio/aclps2014/

publication

Schulz, W. L., Nelson, B. G., Felker, D. K., Durant, T. J. S., & Torres, R. (2016). Evaluation of relational and NoSQL database architectures to manage genomic annotations. Journal of Biomedical Informatics, 64, 288–295. http://doi.org/10.1016/j.jbi.2016.10.015

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Scripts used to test MySQL and MongoDB performance for storing SNP annotations.

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