https://github.com/ssi-dk/bifrost_amrfinderplus

https://github.com/ssi-dk/bifrost_amrfinderplus

Last synced: 3 days ago
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• Host: GitHub
• URL: https://github.com/ssi-dk/bifrost_amrfinderplus
• Owner: ssi-dk
• License: mit
• Created: 2022-10-25T09:05:51.000Z (about 2 years ago)
• Default Branch: main
• Last Pushed: 2024-11-07T14:01:44.000Z (8 days ago)
• Last Synced: 2024-11-07T15:18:54.941Z (8 days ago)
• Language: Python
• Size: 19.5 KB
• Stars: 0
• Watchers: 4
• Forks: 0
• Open Issues: 0
• Metadata Files:
  • Readme: README.md
  • License: LICENSE

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README

        
# bifrost_amrfinderplus

This is the repository of the implementation of [NCBI Antimicrobial Resistance Gene Finder (AMRFinderPlus)](https://github.com/ncbi/amr) on bifrost.

AMRFinderPlus finds acquired antimicrobial resistance genes and some point mutations in protein or assembled nucleotide sequences.

**NOTE: Please be aware that this is a draft. The component hasn't been tested and it doesn't work yet.**

## How to launch - draft

```bash

git clone https://github.com/ssi-dk/bifrost_amrfinderplus

cd bifrost_amrfinderplus

bash install.sh -i LOCAL

conda activate bifrost_amrfinderplus_vx.x.x

export BIFROST_INSTALL_DIR='/your/path/'

BIFROST_DB_KEY="/your/key/here/" python -m bifrost_amrfinderplus -h

```