https://github.com/davidlougheed/snipe
A web tool for optimally choosing eDNA primer pairs to identify a set of taxa.
https://github.com/davidlougheed/snipe
environmental-dna metabarcoding metabarcoding-data
Last synced: 6 months ago
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A web tool for optimally choosing eDNA primer pairs to identify a set of taxa.
- Host: GitHub
- URL: https://github.com/davidlougheed/snipe
- Owner: davidlougheed
- License: gpl-3.0
- Created: 2023-09-17T17:42:13.000Z (almost 3 years ago)
- Default Branch: main
- Last Pushed: 2025-11-01T19:06:44.000Z (9 months ago)
- Last Synced: 2025-11-01T21:06:12.055Z (9 months ago)
- Topics: environmental-dna, metabarcoding, metabarcoding-data
- Language: TypeScript
- Homepage: https://snipe.dlougheed.com/
- Size: 1.06 MB
- Stars: 3
- Watchers: 1
- Forks: 0
- Open Issues: 8
-
Metadata Files:
- Readme: README.md
- License: LICENSE
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README
# SNIPe
> **S**electing **N**ovel **I**nformative **P**rimer-sets for **e**-DNA
A web tool for optimally choosing eDNA primer pairs to identify a set of taxa.
See SNIPe in action at [https://snipe.dlougheed.com/](https://snipe.dlougheed.com/)!
## Publication
The work done on SNIPe is part of a [paper by Tournayre *et al.*](https://doi.org/10.1002/edn3.590); if you cite SNIPe
right now, this is what should be cited:
> #### [Enhancing metabarcoding of freshwater biotic communities: A new online tool for primer selection and exploring data from 14 primer pairs.](https://onlinelibrary.wiley.com/doi/10.1002/edn3.590)
> Orianne Tournayre, Haolun Tian, David R. Lougheed, Matthew J.S. Windle, Sheldon Lambert, Jennipher Carter,
> Zhengxin Sun, Jeff Ridal, Yuxiang Wang, Brian F. Cumming, Shelley E. Arnott, Stephen C. Lougheed. (2024).
> *Environmental DNA*, 6, e590. DOI: [10.1002/edn3.590]
[10.1002/edn3.590]: https://doi.org/10.1002/edn3.590
## Copyright and License Notice
Note that the terms of the license DO NOT apply to anything under the [./datasets](./datasets) folder; for those files,
all rights are reserved by their copyright holders.
The terms of the license also DO NOT apply to the [SNIPe logo](./src/logo_square.svg). The SNIPe logo is © Evelyn
Lougheed 2024, all rights reserved, and used with permission in this application.
SNIPe (the program) is copyright © 2023-2025 David Lougheed ([david.lougheed@gmail.com](mailto:david.lougheed@gmail.com))
This program is free software: you can redistribute it and/or modify
it under the terms of the GNU General Public License as published by
the Free Software Foundation, either version 3 of the License, or
(at your option) any later version.
This program is distributed in the hope that it will be useful,
but WITHOUT ANY WARRANTY; without even the implied warranty of
MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the
GNU General Public License for more details.
You should have received a copy of the GNU General Public License
along with this program. If not, see .
## Development
First, ensure you have NodeJS 24.x installed.
Then, to get the tool set up in a development environment, the following should be sufficient:
```bash
npm install # install dependencies
npm run start # start the development server
```