https://github.com/bfssi-bioinformatics-lab/vfdbquery
vfdbQuery is a simple script for querying an input genome assembly against the Virulence Factor Database (VFDB)
https://github.com/bfssi-bioinformatics-lab/vfdbquery
Last synced: over 1 year ago
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vfdbQuery is a simple script for querying an input genome assembly against the Virulence Factor Database (VFDB)
- Host: GitHub
- URL: https://github.com/bfssi-bioinformatics-lab/vfdbquery
- Owner: BFSSI-Bioinformatics-Lab
- License: mit
- Created: 2018-10-19T15:09:46.000Z (over 7 years ago)
- Default Branch: master
- Last Pushed: 2022-12-08T01:14:43.000Z (over 3 years ago)
- Last Synced: 2025-03-17T23:56:54.622Z (over 1 year ago)
- Language: Python
- Homepage:
- Size: 10.7 KB
- Stars: 1
- Watchers: 0
- Forks: 0
- Open Issues: 2
-
Metadata Files:
- Readme: README.md
- License: LICENSE
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README
# vfdbQuery
### Requirements
- Python 3.6
- [ncbi-blast+](https://blast.ncbi.nlm.nih.gov/Blast.cgi?PAGE_TYPE=BlastDocs&DOC_TYPE=Download) (makeblastdb and blastn must be in your $PATH)
### Installation
```
pip install vfdbQuery
```
### Usage
```
Usage: vfdbQuery [OPTIONS]
vfdbQuery is a simple script for querying an input genome assembly against
the Virulence Factor Database (VFDB).
Options:
-i, --infile PATH FASTA file that you want to search against VFDB
[required]
-db, --database PATH Path to Virulence Factor Database (VFDB) [required]
--help Show this message and exit.
```