Waterborne Disease Prevention Branch - Clinical Detection and Surveillane Laboratory Bioinformatics Toolkit

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Overview

The project was developed to rapidly deploy in-house bioinformatics tool for CDS pathogens.

Version: Archived (Not maintained)

Organization: NCEZID - Division of Foodborne, Waterborne, and Environmental Diseases (DFWED)

Contact Email: ncezid_shareit@cdc.gov

Description: This repo contains archived next generation sequencing tools for Cryptosporidium. Please use the CryptoSSU GitHub project which contains an updated version and is supported.

Exemption: Non-exempt

Keywords: pathogen surveillance, next generation sequencing, bioinformatics, genomics, metagenomics, parasitic disease, Cryptosporidiosis

⚠️ Note: The results produced by this pipeline are not ISO or CLIA-certified and should not be considered diagnostic.

List of Available Tools

Crypto Genotyping Tool

Crypto 18s rRNA typing Tool

Crypto GP60 Tool

Crypto Decontaimination Database Tool

Public Domain Standard Notice

This repository constitutes a work of the United States Government and is not subject to domestic copyright protection under 17 USC § 105. This repository is in the public domain within the United States, and copyright and related rights in the work worldwide are waived through the CC0 1.0 Universal public domain dedication. All contributions to this repository will be released under the CC0 dedication. By submitting a pull request you are agreeing to comply with this waiver of copyright interest.

License Standard Notice

The repository utilizes code licensed under the terms of the Apache Software License and therefore is licensed under ASL v2 or later.

This source code in this repository is free: you can redistribute it and/or modify it under the terms of the Apache Software License version 2, or (at your option) any later version.

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Related documents

• Open Practices
• Rules of Behavior
• Thanks and Acknowledgements
• Disclaimer
• Contribution Notice
• Code of Conduct