Analysis of multiple fungal and bacterial sequence repositories highlights shortcomings in microbial databases

This project contains the links to the reference databases and the code that was used for our study : Analysis of multiple fungal sequence repositories highlights shortcomings in microbial databases

Currently, the study looks at the composition of the four most widely used fungal genomic reference databases:

• RefSeq
• Ensembl
• FungiDB
• JGI 1000 Fungal Genomes Project

... and three of the most widely used bacterial genomic reference databases:

• RefSeq
• Ensembl
• PATRIC

Table of Contents

Fungal Databases

• [Download Reference Database] ()
  • RefSeq
  • Ensmebl
  • FungiDB
• Jupyter notebook analysis
• SQL database
• Figure 1/2
• Supplementary Figures

Bacterial Databases

• Download Reference Database
  • RefSeq
  • Ensmebl
  • PATRIC
• Jupyter notebook analysis
• SQL databases
• Figure 1/2
• Supplementary Figures

How to cite this study

Loeffler, Caitlin, et al. "Improving the usability and comprehensiveness of microbial databases" bioRxiv, doi:https://doi.org/10.1101/497867