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ahmig committed Sep 11, 2023
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# VIPERA

<p align="center">
<img src="logo.jpg" width="1000" title="VIPERA logo">
<img src="logo.jpg" title="VIPERA logo">
</p>

[![PGO badge](https://img.shields.io/badge/PathoGenOmics-Lab-yellow.svg)](https://pathogenomics.github.io/)
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![Install workflow](https://github.com/PathoGenOmics-Lab/Case-study-SARS-CoV-2/actions/workflows/install.yml/badge.svg)
![Test workflow](https://github.com/PathoGenOmics-Lab/Case-study-SARS-CoV-2/actions/workflows/test.yml/badge.svg)

A pipeline for SARS-CoV-2 Virus Intra-Patient Evolution Research and Analysis.
A pipeline for SARS-CoV-2 Virus Intra-Patient Evolution Reporting and Analysis.

## Instructions

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![Snakemake rule graph](.dag.png)


## Methodology

### Pairwise distances between samples
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$M_{ij}$ : Frequency of allel $j$ in position $i$ for sequence $M$.

## Contributors

[![Contributors figure](https://contrib.rocks/image?repo=PathoGenOmics-Lab/Case-study-SARS-CoV-2)](https://github.com/PathoGenOmics-Lab/Case-study-SARS-CoV-2/graphs/contributors)

## Citation
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