sORFdb is a comprehensive, taxonomically independent database dedicated to sORF and small protein sequences, small protein families and related information in bacteria. It aims to improve the findability and classification of sORFs, small proteins, and their functions in bacteria, thereby supporting their future detection and consistent annotation.
The website of sORFdb is available at https://sorfdb.computational.bio/.
The database can be dowloaded from Zenodo
This repository contains the workflows used to create the sORFdb database starting from the data aggregation
(01_download), the data processing (02_processing), the clustering of small proteins and identification of small
protein families (03_autoclust) and helper scripts to prepare the database for the server (04_website-helper). The
Jupyter notebook used for conducting the analysis of the data for the manuscript is also available (05_analysis).
To create the database from scratch, it is highly recommended to have access to a SLURM cluster or expand the nextflow config files with another nextflow executor.
Clone this GitHub repository to your local system. Run the according Nextflow scripts in the subdirectories. Their usage is described in their respective README files.
Requirements