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Adding overview and credit section
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rambaut committed Aug 26, 2024
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{% include callout.html
type='default'
content="**Overview:** This document walks-through how to install and run the ARTIC bioinformatics pipeline in the ONT EPI2ME desktop software."
content="**Overview:** The `artic-mpxv-nf` workflow implements an ARTIC FieldBioinformatics pipeline for the purpose of preparing consensus sequences from MPXV genomes that have been DNA sequenced using a pooled tiling amplicon strategy.
This document walks-through how to install and run the ARTIC bioinformatics pipeline in the ONT EPI2ME desktop software."
%}

## Credits / Acknowledgements

This pipeline is possible due to the ongoing efforts of many people developing and maintaining bioinformatics software. For a complete list of acknowledgments please see the documentation on the pipeline Github repository: [https://github.com/artic-network/artic-mpxv-nf](https://github.com/artic-network/artic-mpxv-nf/blob/master/README.md)

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## Using the ARTIC MPXV analysis pipeline in EPI2ME

**Requirements:**

* A working installation of EPI2ME. For instructions for installing EPI2ME, [see this document](/mpxv/mpxv-epi2me-setup.html).
* Internet access to download the pipeline, and for the first time running it. After that, you should be able to run it offline.
* Details about how the data was generated including the primer scheme used and the base-caller specified within the MinKNOW software.

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## Using an ARTIC MPXV analysis pipeline in EPI2ME

### **Import the workflow**

Open EPI2ME. On the main dashboard select “View workflows”.
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