DFAST-core: a standalone version of DFAST
Overview
Easy install
Runs on Mac and Linux with Python 3.6-.
External binaries are bundled in the software distribution.
BioConda package is also available. 
Flexible and customizable
You can customize the pipeline by defining your own configuration file.
Fast and rich annotation
Less than 10 minutes for typical-sized bacterial genome annotation.
Unique functions such as orthologous gene assignment between reference genomes, pseudo/frameshifted gene prediction.
INSDC submission
Supports fully qualified DDBJ submission files as well as .tbl and .fsa files for GenBank submission.
For more information, please visit our GitHub repository.
Download
Get the latest code at GitHub
Download the DFAST-core distribution
Reference databases
- DFAST default reference database (latest=v1.2.0)
- DFAST default reference database (v1.2.0, 20220404, Protein names have been updated by importing the latest definition from RefSeq.)
- DFAST default reference database (v1.1.7, 20230222, minor fix)
- DFAST default reference database (v1.1.6, 20201208, minor fix, typo corrected)
- DFAST default reference database (v1.1.5, 20191106, Updated Staphylococcus references. Strains N315 and Mu50 included)
- DFAST default reference database (v1.1.4, 20180612, minor fix for protein names)
- DFAST default reference database (v1.1.3, 20180516, minor fix for protein names)
- DFAST default reference database (v1.1.2, 20180426, minor fix for protein names)
- DFAST default reference database (v1.1.1, 20171117)
- Lactic acid bacteria (mainly Lactobacillaceae) (1.0)
- Escherichia coli (0.1)
- Cyanobacteria (0.1)
- Bifidobacterium (0.1)
- You do not need to download these files manually. Use dfast_file_downloader.py script bundled in the software distribution.