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flanker

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Gene-flank analysis tool

// repository documentation

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[![flanker](https://github.com/wtmatlock/flanker/blob/main/docs/frontpage.png)](https://flanker.readthedocs.io/en/latest/ "Read the Docs")

This repository accompanies the paper *Matlock W, Lipworth S, Constantinides B, Peto TEA, Walker AS, Crook D, Hopkins S, Shaw LP, Stoesser N.
                                       Flanker: a tool for comparative genomics of gene flanking regions.
                                       Microbial Genomics. 2021. doi: https://doi.org/10.1099/mgen.0.000634*
 
[![Anaconda-Server Badge](https://anaconda.org/bioconda/flanker/badges/downloads.svg)](https://anaconda.org/bioconda/flanker)
[![Anaconda-Server Badge](https://anaconda.org/bioconda/flanker/badges/latest_release_date.svg)](https://anaconda.org/bioconda/flanker)

# Installation and documentation
[Read the Docs](https://flanker.readthedocs.io/en/latest/)

# Reproducibility
You can reproduce the analysis performed in our manuscript and the figures in the Binder environment below (click on the Binder badge, N.B. it is a bit slow to load - once the environment is loaded open the flanker.rmd file).

[![Binder](https://mybinder.org/badge_logo.svg)](https://mybinder.org/v2/gh/samlipworth/Flanker-Reproducible-Example/main?urlpath=rstudio)

# Tests
 ![Tests](https://github.com/wtmatlock/flanker/actions/workflows/test.yml/badge.svg)
 [![Documentation Status](https://readthedocs.org/projects/flanker/badge/?version=latest)](https://flanker.readthedocs.io/en/latest/?badge=latest)
 
 # License
 Flanker is available under the MIT License.
 
 [![License: MIT](https://img.shields.io/badge/License-MIT-yellow.svg)](https://opensource.org/licenses/MIT)

flanker

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